PYME
20.02.12
Installation
Installation of PYME on 64 bit Windows, OSX, or Linux
Installation for development or instrument control
User Guide
PYMEAcquire
- Instrument control and simulation
dh5view
- Image Data Analysis and Viewing
VisGUI
- Visualising Localization Data Sets
Common Tasks
Analysing Localisation Microscopy data
Development / Hacking
Extending PYME and writing plugins
Technical Details
API Documentation
PYME
Docs
»
Index
Index
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B
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C
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D
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E
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F
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G
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H
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I
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J
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K
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L
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M
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N
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O
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P
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Q
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R
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S
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T
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U
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V
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W
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X
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Y
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Z
A
A() (PYME.localization.FitFactories.Gauss3DFitR.GaussFitResult method)
(PYME.localization.FitFactories.LatPSFFitR.PSFFitResult method)
A0 (PYME.DSView.modules.blobMeasure.DataBlock attribute)
A1 (PYME.DSView.modules.blobMeasure.DataBlock attribute)
A2 (PYME.DSView.modules.blobMeasure.DataBlock attribute)
abs_tolerance (PYME.recipes.base.IsClose attribute)
abscorrel() (in module PYME.misc.shellutils)
acquire() (PYME.ParallelTasks.HDFTaskQueue.myLock method)
ACTION_POSITION (PYME.DSView.displayOptions.DisplayOpts attribute)
ACTION_SELECTION (PYME.DSView.displayOptions.DisplayOpts attribute)
ActionList (class in PYME.Acquire.ui.actionUI)
ActionManager (class in PYME.Acquire.ActionManager)
ActionPanel (class in PYME.Acquire.ui.actionUI)
activate() (PYME.DSView.eventLogViewer.eventLogPanel method)
active (PYME.ui.manualFoldPanel.CaptionButton attribute)
activeRecipe (PYME.recipes.recipeGui.PipelineRecipeManager attribute)
adapt_numarray() (in module PYME.IO.FileUtils.thumbnailDatabase)
(in module PYME.misc.sqlitendarray)
Add (class in PYME.recipes.base)
add() (PYME.LMVis.tests.gl_test_objects.TestObject method)
add_base_tile() (PYME.Analysis.tile_pyramid.ImagePyramid method)
add_curved_line() (PYME.DSView.modules.annotation.Annotater method)
add_integer_id_rule() (PYME.cluster.ruleserver.RuleServer method)
add_menu_item() (PYME.LMVis.Extras.dockedPanel.DockedPanel static method)
add_module() (PYME.recipes.base.ModuleCollection method)
add_octree_layer() (in module PYME.LMVis.Extras.extra_layers)
add_probe() (PYME.LMVis.tests.gl_test_objects.TestObject method)
add_roi() (PYME.tileviewer.tileviewer.TileServer method)
add_service() (PYME.misc.pyme_zeroconf.ZCListener method)
add_shortcut() (PYME.LMVis.Extras.showShortcuts.ShowShortcuts method)
add_snapshot() (PYME.LMVis.Extras.animation.VideoPanel method)
add_snapshot_to_list() (PYME.LMVis.Extras.animation.VideoPanel method)
add_tesselation() (in module PYME.LMVis.Extras.extra_layers)
add_tesselation_layer() (in module PYME.LMVis.Extras.extra_layers)
add_to_json() (PYME.LMVis.tests.gl_test_objects.TestObject method)
AddAqTool() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
AddCamTool() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
addChild() (PYME.cluster.webdav.Tag method)
addColumn() (PYME.IO.tabular.MappingFilter method)
AddElement() (PYME.ui.autoFoldPanel.foldingPane method)
(PYME.ui.manualFoldPanel.foldingPane method)
addEntries() (PYME.ui.MetadataTree.MetadataPanel method)
addEvents() (PYME.IO.h5rFile.H5RFile method)
addFrame() (PYME.IO.buffers.bgFrameBuffer method)
(PYME.IO.DataSources.BGSDataSource.bgFrameBuffer method)
(PYME.IO.buffers.bgFrameBufferC method)
additionalDims (PYME.IO.DataSources.BaseDataSource.BaseDataSource attribute)
addKey() (PYME.LMVis.workspaceTree.WorkWrap method)
AddMenuItem() (PYME.ui.AUIFrame.AUIFrame method)
AddMetadataToMeasurements (class in PYME.recipes.measurement)
AddNewElement() (PYME.ui.autoFoldPanel.foldingPane method)
(PYME.ui.manualFoldPanel.foldingPane method)
AddPage() (PYME.ui.AUIFrame.AUIFrame method)
AddPane() (PYME.ui.autoFoldPanel.foldPanel method)
(PYME.ui.manualFoldPanel.foldPanel method)
addQueueEvents() (PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
AddRecord() (PYME.Analysis.processLogger.BackendBase method)
(PYME.Analysis.processLogger.ContextLayer method)
(PYME.Analysis.processLogger.ContextManager method)
(PYME.Analysis.processLogger.TablesBackend method)
AddShellMappedCoordinates (class in PYME.recipes.localisations)
AddSlice() (PYME.IO.FileUtils.saveTiffStack.TiffMP method)
AddTool() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
addVariable() (PYME.IO.tabular.MappingFilter method)
AddVoxelSizeSetting() (PYME.Acquire.microscope.microscope method)
advert (PYME.cluster.ruleserver.IntegerIDRule attribute)
af() (PYME.Acquire.autofocus.AutoFocus method)
afterPopupMenu() (PYME.contrib.listctrlMixins.ListCtrlSelectionManagerMix method)
Afunc() (PYME.Analysis.PSFEst.dec.dec_psf method)
(PYME.Deconv.dec.ClassicMappingFFTW method)
(PYME.Deconv.dec.ClassicMappingNP method)
(PYME.Deconv.dec.DeconvMappingBase method)
(PYME.Deconv.dec.SpatialConvolutionMapping method)
(PYME.Deconv.dec.dec_4pi method)
(PYME.Deconv.dec.dec_4pi_c method)
aggregate_dirlisting() (in module PYME.IO.clusterListing)
AggregateMeasurements (class in PYME.recipes.tablefilters)
Ahfunc() (PYME.Analysis.PSFEst.dec.dec_psf method)
(PYME.Deconv.dec.ClassicMappingFFTW method)
(PYME.Deconv.dec.ClassicMappingNP method)
(PYME.Deconv.dec.DeconvMappingBase method)
(PYME.Deconv.dec.SpatialConvolutionMapping method)
(PYME.Deconv.dec.dec_4pi method)
(PYME.Deconv.dec.dec_4pi_c method)
alignment_threshold (PYME.recipes.surface_fitting.FitSurfaceWithPatches attribute)
all (PYME.Analysis.Tracking.trackUtils.ClumpManager attribute)
(PYME.Analysis.Tracking.trackUtils.TrackManager attribute)
all_props (PYME.cluster.webdav.DAVRequestHandler attribute)
allmodules() (in module PYME.DSView.modules)
AnalysisDetailsPanel (class in PYME.Acquire.ui.AnalysisSettingsUI)
AnalysisSettings (class in PYME.Acquire.ui.AnalysisSettingsUI)
AnalysisSettingsPanel (class in PYME.Acquire.ui.AnalysisSettingsUI)
analyze1dSeries() (in module PYME.misc.shellutils)
analyzeDataPlusEvents() (in module PYME.misc.shellutils)
angHist() (in module PYME.Analysis.angleFilter)
angHist2() (in module PYME.Analysis.angleFilter)
angle_filter() (in module PYME.Analysis.angleFilter)
angle_filter_m() (in module PYME.Analysis.angleFilter)
angularDist() (PYME.DSView.modules.blobMeasure.BlobObject method)
aniso() (in module PYME.misc.aniso)
anisodiff() (in module PYME.contrib.aniso.aniso)
anisodiff3() (in module PYME.contrib.aniso.aniso)
annealThresh() (in module PYME.Analysis.annealThresh)
annealThresh2() (in module PYME.Analysis.annealThresh)
annealThresh2D() (in module PYME.Analysis.annealThresh)
Annotater (class in PYME.DSView.modules.annotation)
APIHTTPServer (class in PYME.util.webframework)
apodization (PYME.DSView.modules.pupilTools.PupilTools attribute)
append() (PYME.DSView.displayOptions.MyWeakSet method)
Append() (PYME.DSView.modules.composite.ImageList method)
append_original_locs (PYME.recipes.pointcloud.DelaunayCircumcentres attribute)
appendToTable() (PYME.IO.h5rFile.H5RFile method)
apply() (PYME.recipes.base.ModuleBase method)
apply_shifts_to_points() (in module PYME.Analysis.points.multiview)
apply_simple() (PYME.recipes.base.ModuleBase method)
applyByChannel() (in module PYME.Analysis.BleachProfile.kinModels)
applyFilter() (PYME.recipes.base.Add method)
(PYME.recipes.base.BinaryOr method)
(PYME.recipes.base.Divide method)
(PYME.recipes.base.Invert method)
(PYME.recipes.base.IsClose method)
(PYME.recipes.base.LogicalAnd method)
(PYME.recipes.base.Multiply method)
(PYME.recipes.base.Normalize method)
(PYME.recipes.base.NormalizeMean method)
(PYME.recipes.base.Pow method)
(PYME.recipes.base.Scale method)
(PYME.recipes.base.Subtract method)
(PYME.recipes.filters.DespeckleFilter method)
(PYME.recipes.filters.DoGFilter method)
(PYME.recipes.filters.GaussianFilter method)
(PYME.recipes.filters.MaskEdges method)
(PYME.recipes.filters.MaxFilter method)
(PYME.recipes.filters.MeanFilter method)
(PYME.recipes.filters.MedianFilter method)
(PYME.recipes.filters.Zoom method)
(PYME.recipes.machine_learning.CNNFilter method)
(PYME.recipes.machine_learning.svmSegment method)
(PYME.recipes.processing.BinaryDilation method)
(PYME.recipes.processing.BinaryErosion method)
(PYME.recipes.processing.BinaryFillHoles method)
(PYME.recipes.processing.Deconvolve method)
(PYME.recipes.processing.DeconvolveMotionCompensating method)
(PYME.recipes.processing.DistanceTransform method)
(PYME.recipes.processing.FractionalThreshold method)
(PYME.recipes.processing.GreyDilation method)
(PYME.recipes.processing.GreyErosion method)
(PYME.recipes.processing.Label method)
(PYME.recipes.processing.LocalMaxima method)
(PYME.recipes.processing.Projection method)
(PYME.recipes.processing.SelectLabel method)
(PYME.recipes.processing.SimpleThreshold method)
(PYME.recipes.processing.Threshold method)
(PYME.recipes.processing.Watershed method)
(PYME.recipes.processing.WhiteTophat method)
applyLUT() (in module PYME.DSView.LUT)
ArithmaticFilter (class in PYME.recipes.base)
arrangeNodes() (in module PYME.misc.depGraph)
arrangeNodes_() (in module PYME.misc.depGraph)
ArrayDataSource (class in PYME.IO.DataSources.ArrayDataSource)
ArraySettingsAndViewPanel (class in PYME.DSView.arrayViewPanel)
ArrayViewPanel (class in PYME.DSView.arrayViewPanel)
as_html() (PYME.recipes.graphing.Plot method)
as_pdf() (PYME.recipes.graphing.Plot method)
as_png() (PYME.recipes.graphing.Plot method)
as_svg() (PYME.recipes.graphing.Plot method)
asarray() (PYME.contrib.gohlke.czifile.CziFile method)
(PYME.contrib.gohlke.fcsfiles.ConfoCor2Raw method)
(PYME.contrib.gohlke.fcsfiles.ConfoCor3Raw method)
(PYME.contrib.gohlke.tifffile.TIFFfile method)
ASF() (in module PYME.misc.snells)
assert_leader() (PYME.IO.clusterDuplication.DupManager method)
assert_name_ok() (in module PYME.IO.unifiedIO)
assert_uri_ok() (in module PYME.IO.unifiedIO)
astigmatic_gaussian() (in module PYME.localization.FitFactories.AstigGaussGPUFitFR)
astigmatism_calibration_location (PYME.recipes.multiview.MapAstigZ attribute)
attachment_directory (PYME.contrib.gohlke.czifile.CziFile attribute)
attachments() (PYME.contrib.gohlke.czifile.CziFile method)
attempt_dup() (PYME.IO.clusterDuplication.DupManager method)
AUIFrame (class in PYME.ui.AUIFrame)
AuiNotebookWithFloatingPages (class in PYME.contrib.auiFloatBook)
Auserlist (PYME.cluster.webdav.DAVRequestHandler attribute)
auth_enable (PYME.cluster.webdav.DAVRequestHandler attribute)
auth_file (PYME.cluster.webdav.DAVRequestHandler attribute)
AutocorrelationDriftCorrection (class in PYME.recipes.localisations)
AutoFocus (class in PYME.Acquire.autofocus)
autostart_analysis (PYME.Acquire.SpoolController.SpoolController attribute)
AutoWidthListCtrl (class in PYME.Acquire.sampleInformation)
available_renderers (PYME.recipes.localisations.DensityMapping attribute)
AverageFramesByZStep (class in PYME.recipes.processing)
averageNormals() (in module PYME.Analysis.points.gen3DTriangs)
averageNormalsF() (in module PYME.Analysis.points.gen3DTriangs)
axes (PYME.contrib.gohlke.czifile.CziFile attribute)
axis (PYME.recipes.processing.Projection attribute)
AXIS_A (PYME.LMVis.tests.gl_test_objects.Ellipsoid attribute)
AXIS_B (PYME.LMVis.tests.gl_test_objects.Ellipsoid attribute)
AXIS_C (PYME.LMVis.tests.gl_test_objects.Ellipsoid attribute)
B
BackendBase (class in PYME.Analysis.processLogger)
background() (in module PYME.Analysis.PSFEst.psfQuality)
(PYME.localization.FitFactories.Gauss3DFitR.GaussFitResult method)
(PYME.localization.FitFactories.LatPSFFitR.PSFFitResult method)
backgroundBuffer (class in PYME.IO.buffers)
(class in PYME.IO.DataSources.BGSDataSource)
backgroundBufferM (class in PYME.IO.buffers)
(class in PYME.IO.DataSources.BGSDataSource)
backgroundBufferMC (class in PYME.IO.buffers)
backgroundCorrectPSFWF() (in module PYME.Analysis.PSFEst.extractImages)
BackgroundSubtractionMovingAverage (class in PYME.recipes.processing)
BackgroundSubtractionMovingPercentile (class in PYME.recipes.processing)
BACKWARDS (PYME.Acquire.stackSettings.StackSettings attribute)
bake() (in module PYME.recipes.batchProcess)
bake_recipe() (in module PYME.recipes.batchProcess)
BakeshopApp (class in PYME.recipes.bakeshop)
bandwidthTesting (PYME.cluster.dataserver_wsgi.dataserver attribute)
(PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler attribute)
base64_image() (in module PYME.IO.rgb_image)
baseconvert() (in module PYME.IO.FileUtils.nameUtils)
BaseDataSource (class in PYME.IO.DataSources.BaseDataSource)
BaseHDFSource (class in PYME.IO.tabular)
basic_props (PYME.cluster.webdav.DAVRequestHandler attribute)
BatchFrame (class in PYME.recipes.recipeGui)
bbox (PYME.DSView.modules.blobMeasure.DataBlock attribute)
bead() (in module PYME.localization.FitFactories.BeadConvolvedAstigGaussFit)
beadDiameter (PYME.recipes.processing.Deconvolve attribute)
bf_int() (in module PYME.Analysis.BleachProfile.intensProf)
bgFrameBuffer (class in PYME.IO.buffers)
(class in PYME.IO.DataSources.BGSDataSource)
bgFrameBufferC (class in PYME.IO.buffers)
BGInitTask (class in PYME.Acquire.ExecTools)
bid() (PYME.cluster.ruleserver.IntegerIDRule method)
bid_on_tasks() (PYME.cluster.ruleserver.RuleServer method)
bin_spacing (PYME.recipes.processing.Threshold attribute)
BinaryDilation (class in PYME.recipes.processing)
BinaryErosion (class in PYME.recipes.processing)
BinaryFillHoles (class in PYME.recipes.processing)
BinaryOr (class in PYME.recipes.base)
binAvg() (in module PYME.Analysis.binAvg)
binBy (PYME.recipes.measurement.BinnedHistogram attribute)
binMedian() (in module PYME.Analysis.binAvg)
binned_average() (in module PYME.Analysis.binAvg)
binned_median() (in module PYME.Analysis.binAvg)
BinnedHistogram (class in PYME.recipes.measurement)
binsize (PYME.recipes.localisations.AutocorrelationDriftCorrection attribute)
binSize (PYME.recipes.measurement.PairwiseDistanceHistogram attribute)
binSizeNM (PYME.recipes.processing.ColocalisationEDT attribute)
binSum() (in module PYME.misc.shellutils)
BitPacker (class in PYME.contrib.lzw)
bitstobytes() (in module PYME.contrib.lzw)
BitUnpacker (class in PYME.contrib.lzw)
BlankResult() (in module PYME.localization.FitFactories.MultiviewFitInterpNR)
(in module PYME.localization.FitFactories.SplitterFitFNR)
(in module PYME.localization.FitFactories.SplitterFitFusionR)
(in module PYME.localization.FitFactories.SplitterFitInterpBNR)
(in module PYME.localization.FitFactories.SplitterFitInterpNR)
blob() (in module PYME.Analysis.tile_pyramid)
blobFinder (class in PYME.DSView.modules.blobFinding)
blobify() (in module PYME.Analysis.points.gen3DTriangs)
blobify2D() (in module PYME.Analysis.points.gen3DTriangs)
BlobObject (class in PYME.DSView.modules.blobMeasure)
blobSigma (PYME.recipes.measurement.MultifitBlobs attribute)
block_size (PYME.recipes.localisations.TimeBlocks attribute)
blockify() (PYME.Deconv.tq_block_dec.blocking_deconv method)
blocking_deconv (class in PYME.Deconv.tq_block_dec)
Blue() (in module PYME.misc.extraCMaps)
BoaApp (class in PYME.Acquire.PYMEAcquire)
Bool (in module PYME.misc.mock_traits)
BoolFloatParam (class in PYME.localization.MetaDataEdit)
BoolParam (class in PYME.localization.MetaDataEdit)
bounds (PYME.IO.image.ImageBounds attribute)
BufferManager (class in PYME.localization.remFitBuf)
BufWriter (class in PYME.cluster.webdav)
build_call_tree_threads() (in module PYME.util.fProfile.convertProfile)
builddict() (in module PYME.cluster.webdav)
(PYME.cluster.webdav.XMLDict_Parser method)
ByteDecoder (class in PYME.contrib.lzw)
ByteEncoder (class in PYME.contrib.lzw)
bytestobits() (in module PYME.contrib.lzw)
C
C (in module PYME.Acquire.protocol)
c_mul() (in module PYME.misc.hash32)
CacheEntry (class in PYME.Analysis.tile_pyramid)
CachingMDHandler (class in PYME.IO.MetaDataHandler)
CachingResultsFilter (class in PYME.IO.tabular)
cachingResultsFilter() (in module PYME.IO.tabular)
calc_dist() (in module PYME.localization.traveling_salesperson)
calc_flow() (PYME.recipes.processing.OpticalFlow method)
calc_flow_mp() (PYME.recipes.processing.OpticalFlow method)
calc_gauss_weights() (in module PYME.localization.ofind)
(in module PYME.localization.ofind_pri)
(in module PYME.localization.ofind_split)
calc_grad() (PYME.recipes.processing.DirectionToMask3D method)
(PYME.recipes.processing.Gradient2D method)
(PYME.recipes.processing.Gradient3D method)
calc_proj() (PYME.recipes.processing.ProjectOnVector method)
calc_shifts_for_points() (in module PYME.Analysis.points.multiview)
calcCenteredMoments() (in module PYME.Analysis.points.moments)
calcCoeffs() (in module PYME.misc.zernike)
calcCoeffs_rays() (in module PYME.misc.zernike)
calcCorrDrift() (PYME.recipes.localisations.AutocorrelationDriftCorrection method)
calcCorrections() (in module PYME.Analysis.points.twoColour)
calcCorrShift() (in module PYME.Analysis.deTile)
CalcCramerRao() (in module PYME.Analysis.cramerRao)
CalcCramerReoZ() (in module PYME.Analysis.cramerRao)
calcCRB() (PYME.DSView.modules.psfTools.CRBViewPanel method)
calcDistances() (PYME.Analysis.points.EdgeDB.edges.EdgeDB method)
calcDistCorr() (in module PYME.Analysis.Colocalisation.distColoc)
calcEdgeDists() (in module PYME.Analysis.points.objectMeasure)
CalcFisherInfoModel() (in module PYME.Analysis.cramerRao)
CalcFisherInform2D() (in module PYME.Analysis.cramerRao)
CalcFisherInformZ() (in module PYME.Analysis.cramerRao)
CalcFisherInformZn() (in module PYME.Analysis.cramerRao)
CalcFisherInformZn2() (in module PYME.Analysis.cramerRao)
CalcImSize() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
calcLinkageMatrix() (PYME.Analysis.Tracking.tracking.Tracker method)
calcLinkages() (PYME.Analysis.Tracking.tracking.Tracker method)
calcMCCenteredMoments() (in module PYME.Analysis.points.moments)
calcMeanEdge() (in module PYME.Analysis.points.gen3DTriangs)
calcMEs() (PYME.localization.Test.fitTestJig.fitTestJig method)
(PYME.localization.Test.fitTestJigSCMOS.fitTestJig method)
(PYME.localization.Test.fitTestJigWC.fitTestJig method)
calcNeighbourDistPart() (in module PYME.LMVis.visHelpers)
calcNeighbourDists() (in module PYME.LMVis.visHelpers)
(in module PYME.LMVis.visHelpersMin)
calcProf() (in module PYME.Analysis.BleachProfile.intensProf)
calcSigma() (PYME.localization.remFitBuf.fitTask class method)
calcTetVolume() (in module PYME.Analysis.points.gen3DTriangs)
calcThreshold() (PYME.localization.remFitBuf.fitTask method)
calcTrackVelocity() (in module PYME.Analysis.Tracking.trackUtils)
calcTs() (in module PYME.Analysis.BleachProfile.intensProf)
calcTwist() (in module PYME.localization.twist)
calculate_length_with_reversal() (in module PYME.Analysis.points.traveling_salesperson.sectioned_two_opt)
(in module PYME.localization.traveling_salesperson)
calculate_path_length() (in module PYME.Analysis.points.traveling_salesperson.two_opt)
(in module PYME.localization.traveling_salesperson)
CalcUnscrolledPosition() (PYME.DSView.scrolledImagePanel.ScrolledImagePanel method)
calibrate() (in module PYME.localization.FitFactories.zEstimators.astigEstimator)
(in module PYME.localization.FitFactories.zEstimators.biplaneEstimator)
(in module PYME.localization.FitFactories.zEstimators.genericDualEstimator)
(in module PYME.localization.FitFactories.zEstimators.genericEstimator)
(in module PYME.localization.FitFactories.zEstimators.priEstimator)
CalibrateShifts (class in PYME.recipes.multiview)
CameraChooserPanel (class in PYME.Acquire.ui.selectCameraPanel)
CameraInfoManager (class in PYME.localization.remFitBuf)
can_fold (PYME.ui.manualFoldPanel.foldingPane attribute)
CaptionBar (class in PYME.ui.autoFoldPanel)
(class in PYME.ui.manualFoldPanel)
CaptionButton (class in PYME.ui.manualFoldPanel)
cart2sph() (in module PYME.Analysis.points.spherical_harmonics)
Cauchy() (in module PYME.misc.glassModel)
CaWave (class in PYME.recipes.processing)
CDLL (class in PYME.misc.mock_ctypes)
cent2d() (in module PYME.misc.shellutils)
center() (PYME.Acquire.zScanner.zScanner method)
CENTRE_AND_LENGTH (PYME.Acquire.stackSettings.StackSettings attribute)
centre_roi_on() (PYME.Acquire.microscope.microscope method)
centroid (PYME.DSView.modules.blobMeasure.DataBlock attribute)
centroidNM (PYME.DSView.modules.blobMeasure.DataBlock attribute)
cglob() (in module PYME.IO.clusterIO)
channel (PYME.recipes.localisations.ExtractTableChannel attribute)
(PYME.recipes.measurement.FitPoints attribute)
channelToExtract (PYME.recipes.base.ExtractChannel attribute)
check_name() (in module PYME.IO.unifiedIO)
check_uri() (in module PYME.IO.unifiedIO)
CheckColNames() (PYME.LMVis.importTextDialog.ImportTextDialog method)
checkHardware() (PYME.Acquire.frameWrangler.FrameWrangler method)
CheckItem() (PYME.contrib.listctrlMixins.CheckListCtrlMixin method)
CheckListCtrlMixin (class in PYME.contrib.listctrlMixins)
checkTimeouts() (PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.taskQueue.TaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
checkTQ() (PYME.DSView.modules.deconvolution.deconvolver method)
cherrypy_server() (in module PYME.cluster.dataserver_wsgi)
chi2_mse() (in module PYME.Analysis.BleachProfile.kinModels)
ChoiceParam (class in PYME.localization.MetaDataEdit)
ChunkedHuffmanCompress() (in module PYME.IO.PZFFormat)
ChunkedHuffmanCompress_o() (in module PYME.IO.PZFFormat)
ChunkedHuffmanDecompress() (in module PYME.IO.PZFFormat)
ChunkedTravelingSalesperson (class in PYME.recipes.measurement)
circGeom (class in PYME.misc.coverslipGeometries)
CircularTilePanel (class in PYME.Acquire.ui.tile_panel)
CircularTiler (class in PYME.Acquire.Utils.tiler)
circumcentres() (PYME.recipes.pointcloud.Tesselation method)
ClassicMappingFFTW (class in PYME.Deconv.dec)
ClassicMappingNP (class in PYME.Deconv.dec)
classifier (PYME.recipes.machine_learning.svmSegment attribute)
classify() (PYME.Analysis.svmSegment.svmClassifier method)
cleanup() (PYME.Acquire.HTTPSpooler.Spooler method)
(PYME.Deconv.dec.dec_4pi_c method)
(PYME.ParallelTasks.DSTaskQueue.DSTaskQueue method)
(PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.HDFTaskQueue.HDFTaskQueue method)
(PYME.ParallelTasks.taskQueue.TaskQueue method)
(PYME.cluster.HTTPRulePusher.HTTPRulePusher method)
(PYME.cluster.HTTPTaskPusher.HTTPTaskPusher method)
cleanup_cluster() (PYME.Deconv.tq_block_dec.blocking_deconv method)
clear() (PYME.LMVis.Extras.animation.VideoPanel method)
(PYME.recipes.base.ModuleCollection method)
Clear() (PYME.ui.autoFoldPanel.foldPanel method)
(PYME.ui.manualFoldPanel.foldPanel method)
clear_rois() (PYME.tileviewer.tileviewer.TileServer method)
clear_view() (PYME.LMVis.Extras.animation.VideoPanel method)
ClearTrack() (PYME.Acquire.positionTracker.PositionTracker method)
click_test() (PYME.ui.manualFoldPanel.CaptionButton method)
clipped_widefield_pupil_and_propagator() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
CloneSource (class in PYME.IO.tabular)
cloneSource() (in module PYME.IO.tabular)
close() (PYME.contrib.gohlke.czifile.CziFile method)
(PYME.IO.FileUtils.saveTiffStack.TiffMP method)
(PYME.IO.tabular.BaseHDFSource method)
(PYME.contrib.gohlke.fcsfiles.ConfoCor2Raw method)
(PYME.contrib.gohlke.fcsfiles.ConfoCor3Fcs method)
(PYME.contrib.gohlke.fcsfiles.ConfoCor3Raw method)
(PYME.contrib.gohlke.tifffile.TIFFfile method)
CloseEditor() (PYME.contrib.listctrlMixins.TextEditMixin method)
(PYME.ui.MetadataTree.TextEditMixin method)
Cloud (class in PYME.LMVis.tests.gl_test_objects)
Clump (class in PYME.Analysis.Tracking.trackUtils)
clumpColumnName (PYME.recipes.localisations.DBSCANClustering attribute)
ClumpManager (class in PYME.Analysis.Tracking.trackUtils)
clumpRadiusMultiplier (PYME.recipes.localisations.FiducialCorrection attribute)
clumpRadiusScale (PYME.recipes.tracking.FindClumps attribute)
clumpRadiusVar (PYME.recipes.localisations.FiducialCorrection attribute)
clumpRadiusVariable (PYME.recipes.tracking.FindClumps attribute)
cluster() (in module PYME.Analysis.points.tCluster)
ClusterAnalyser (class in PYME.LMVis.Extras.clusterAnalysis)
ClusterCountVsImagingTime (class in PYME.recipes.localisations)
ClusterFileInput (class in PYME.misc.django_widgets)
Clusterizer (class in PYME.LMVis.tests.gl_test_objects)
ClusterOfOne (class in PYME.cluster.cluster_of_one)
cmp() (in module PYME.contrib.listctrlMixins)
cnn_filter() (in module PYME.DSView.modules.convnet)
CNNFilter (class in PYME.recipes.machine_learning)
coalesce_dict_sorted() (in module PYME.Analysis.points.multiview)
coalesceClumps() (in module PYME.Analysis.points.DeClump.pyDeClump)
coalesceClumps_() (in module PYME.Analysis.points.DeClump.pyDeClump)
code_size() (PYME.contrib.lzw.Decoder method)
(PYME.contrib.lzw.Encoder method)
COIFitFactory (class in PYME.localization.FitFactories.LatFitCOIR)
(class in PYME.localization.FitFactories.SplitterFitCOIR)
COIFitResultR() (in module PYME.localization.FitFactories.ConfocCOIR)
(in module PYME.localization.FitFactories.LatFitCOIR)
(in module PYME.localization.FitFactories.SplitterFitCOIR)
collapsingPane (class in PYME.ui.autoFoldPanel)
(class in PYME.ui.manualFoldPanel)
collectConnected() (in module PYME.Analysis.points.EdgeDB.segment)
(in module PYME.Analysis.points.gen3DTriangs)
Collection (class in PYME.cluster.webdav)
COLLECTION_MIME_TYPE (PYME.cluster.webdav.DirCollection attribute)
Colocalisation (class in PYME.recipes.processing)
ColocalisationEDT (class in PYME.recipes.processing)
colocaliser (class in PYME.DSView.modules.coloc)
ColocSettingsDialog (class in PYME.DSView.modules.coloc)
(class in PYME.DSView.modules.fourierRingCorrelation)
colorblindFriendly (PYME.recipes.output.RGBImageOutput attribute)
colorize_file() (in module PYME.util.mProfile.colorize_db_t)
colour() (in module PYME.Analysis.PSFEst.psfQuality)
ColourFilter (class in PYME.IO.tabular)
colourFilter (PYME.LMVis.renderers.CurrentRenderer attribute)
colourFilter() (in module PYME.IO.tabular)
ColourFilterPane (class in PYME.LMVis.colourFilterGUI)
ColourFromStyle() (in module PYME.ui.autoFoldPanel)
(in module PYME.ui.manualFoldPanel)
ColourImageViewPanel (class in PYME.LMVis.imageView)
(class in PYME.LMVis.imageView2)
colourPanel (class in PYME.LMVis.colourPanel)
colourPlotPanel (class in PYME.LMVis.colourPanel)
ColourRenderer (class in PYME.LMVis.renderers)
colours (PYME.recipes.localisations.DensityMapping attribute)
columns (PYME.recipes.localisations.DBSCANClustering attribute)
(PYME.recipes.measurement.NearestNeighbourDistances attribute)
ColumnSorterMixin (class in PYME.contrib.listctrlMixins)
ColumnSource (class in PYME.IO.tabular)
common_prefix() (in module PYME.DSView.modules.composite)
compareOriginalWithRec() (in module PYME.Analysis.points.QuadTree.qtUtils)
completeMetadata() (PYME.recipes.base.ArithmaticFilter method)
(PYME.recipes.base.Filter method)
(PYME.recipes.filters.DespeckleFilter method)
(PYME.recipes.filters.DoGFilter method)
(PYME.recipes.filters.GaussianFilter method)
(PYME.recipes.filters.MaxFilter method)
(PYME.recipes.filters.MeanFilter method)
(PYME.recipes.filters.MedianFilter method)
(PYME.recipes.filters.Zoom method)
(PYME.recipes.machine_learning.CNNFilter method)
(PYME.recipes.machine_learning.svmSegment method)
(PYME.recipes.processing.Deconvolve method)
(PYME.recipes.processing.FractionalThreshold method)
(PYME.recipes.processing.Label method)
(PYME.recipes.processing.LocalMaxima method)
(PYME.recipes.processing.OpticalFlow method)
(PYME.recipes.processing.SelectLabel method)
(PYME.recipes.processing.SimpleThreshold method)
complexMode (PYME.DSView.displayOptions.DisplayOpts attribute)
CompositeDialog (class in PYME.DSView.modules.composite)
compositor (class in PYME.DSView.modules.composite)
compress() (in module PYME.contrib.lzw)
computeLoop() (PYME.cluster.taskWorkerHTTP.taskWorker method)
ConcatenateFilter (class in PYME.IO.tabular)
concatenateFilter() (in module PYME.IO.tabular)
ConcatenateTables (class in PYME.recipes.tablefilters)
configuration() (in module PYME.Acquire.setup)
(in module PYME.Analysis.PSFGen.setup)
(in module PYME.Analysis.points.DeClump.setup)
(in module PYME.Analysis.points.DistHist.setup)
(in module PYME.Analysis.points.EdgeDB.setup)
(in module PYME.Analysis.points.SoftRend.setup)
(in module PYME.Analysis.points.arcfit.setup)
(in module PYME.Analysis.points.astigmatism.setup)
(in module PYME.Analysis.points.setup)
(in module PYME.Analysis.setup)
(in module PYME.DSView.LUT.setup)
(in module PYME.DSView.setup)
(in module PYME.IO.FileUtils.setup)
(in module PYME.IO.countdir.setup)
(in module PYME.IO.setup)
(in module PYME.LMVis.setup)
(in module PYME.contrib.gohlke.setup)
(in module PYME.contrib.setup)
(in module PYME.localization.cInterp.setup)
(in module PYME.localization.cModels.setup)
(in module PYME.localization.lev_gfit.setup)
(in module PYME.localization.setup)
(in module PYME.recipes.setup)
(in module PYME.resources.setup)
(in module PYME.setup)
(in module PYME.setup_exe)
configureModule() (PYME.recipes.recipeGui.RecipeView method)
confocal_parser (class in PYME.DSView.logparser)
ConfocCOI() (in module PYME.localization.FitFactories.ConfocCOIR)
ConfoCor2Raw (class in PYME.contrib.gohlke.fcsfiles)
ConfoCor3Fcs (class in PYME.contrib.gohlke.fcsfiles)
ConfoCor3Raw (class in PYME.contrib.gohlke.fcsfiles)
congrid() (in module PYME.contrib.congrid)
constrain_surface_to_point (PYME.recipes.surface_fitting.FitSurfaceWithPatches attribute)
ContextLayer (class in PYME.Analysis.processLogger)
ContextManager (class in PYME.Analysis.processLogger)
Controller() (in module PYME.misc.mock_traitsui)
convert() (in module PYME.util.fProfile.convertProfile)
convert_numarray() (in module PYME.IO.FileUtils.thumbnailDatabase)
(in module PYME.misc.sqlitendarray)
convertFile() (in module PYME.IO.FileUtils.h5rToTxt)
(in module PYME.IO.FileUtils.RawToHdf5)
convertFiles() (in module PYME.IO.FileUtils.TiffSeqToHdf5)
convertpb2utf16le() (in module PYME.misc.shellutils)
copy() (PYME.LMVis.views.View class method)
copyEntriesFrom() (PYME.Acquire.HTTPHDFSpooler.HttpSpoolMDHandler method)
(PYME.IO.MetaDataHandler.MDHandlerBase method)
(PYME.IO.MetaDataHandler.QueueMDHandler method)
CopyImage() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
correctImage() (PYME.localization.remFitBuf.CameraInfoManager method)
correlative_shift() (in module PYME.Analysis.points.multiview)
correltrack() (in module PYME.misc.shellutils)
correltrack2() (in module PYME.misc.shellutils)
corrScale() (in module PYME.Analysis.Colocalisation.colocScaleDep)
cpuCount() (in module PYME.ParallelTasks.launchWorkers)
crb3d() (in module PYME.Analysis.PSFEst.psfQuality)
CRBViewPanel (class in PYME.DSView.modules.psfTools)
create() (in module PYME.Acquire.acquiremainframe)
(in module PYME.Acquire.ui.seqdialog)
(in module PYME.util.shmarray.shmarray)
create_buttons() (PYME.LMVis.Extras.animation.VideoPanel method)
(PYME.LMVis.Extras.saved_views.ViewPanel method)
create_copy() (in module PYME.util.shmarray.shmarray)
create_gui() (PYME.LMVis.Extras.scaleBox.ScaleBoxPanel method)
create_pyramid_from_dataset() (in module PYME.Analysis.tile_pyramid)
CreateColourFilterPane() (in module PYME.LMVis.colourFilterGUI)
CreateDisplayPane() (in module PYME.LMVis.displayPane)
CreateFilterPane() (in module PYME.DSView.modules.measure.filterPan)
(in module PYME.LMVis.filterPane)
createFitTaskFromTaskDef() (in module PYME.localization.remFitBuf)
CreateFoldPanel() (PYME.ui.AUIFrame.AUIFrame method)
createGUI() (PYME.localization.MetaDataEdit.BoolFloatParam method)
(PYME.localization.MetaDataEdit.BoolParam method)
(PYME.localization.MetaDataEdit.ChoiceParam method)
(PYME.localization.MetaDataEdit.FilenameParam method)
(PYME.localization.MetaDataEdit.FloatListParam method)
(PYME.localization.MetaDataEdit.FloatParam method)
(PYME.localization.MetaDataEdit.IntParam method)
(PYME.localization.MetaDataEdit.ParamGroup method)
(PYME.localization.MetaDataEdit.RangeParam method)
(PYME.localization.MetaDataEdit.StringParam method)
createImage() (in module PYME.Acquire.sampleInformation)
CreateModuleMenu() (PYME.DSView.dsviewer.DSViewFrame method)
createQT() (in module PYME.Analysis.points.QuadTree.pointQT)
(in module PYME.Analysis.points.QuadTree.pointQTF)
createQueue() (PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
CreateToolBar() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
CreateToolPanel() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
CropExportData() (in module PYME.IO.dataExporter)
cropper (class in PYME.DSView.modules.cropping)
CSInterpolator (class in PYME.localization.FitFactories.Interpolators.CSInterpolator)
(class in PYME.localization.FitFactories.Interpolators.CubeSInterpolatorP)
CStr (class in PYME.misc.mock_traits)
csvcoords() (in module PYME.misc.shellutils)
CSVOutput (class in PYME.recipes.output)
CubicSplineInterpolator (class in PYME.localization.FitFactories.Interpolators.CubicSplineInterpolator)
cumuexpfit() (in module PYME.LMVis.Extras.QPobjectSegment)
(in module PYME.LMVis.objectDarkMeasure)
(in module PYME.misc.shellutils)
CurrentRenderer (class in PYME.LMVis.renderers)
Cyan() (in module PYME.misc.extraCMaps)
CziFile (class in PYME.contrib.gohlke.czifile)
D
dark() (in module PYME.DSView.modules.dark_and_flatfield)
darkAnalysisRawPlusPipeline() (in module PYME.misc.shellutils)
darkCal() (in module PYME.misc.shellutils)
darkCalfromMetadata() (in module PYME.misc.shellutils)
darkFilename (PYME.recipes.processing.FlatfiledAndDarkCorrect attribute)
darktimehist() (in module PYME.misc.shellutils)
darktimes() (in module PYME.misc.shellutils)
data (PYME.Analysis.tile_pyramid.CacheEntry attribute)
(PYME.misc.editgrid.EntryGrid attribute)
DataBlock (class in PYME.DSView.modules.blobMeasure)
dataBuffer (class in PYME.IO.buffers)
(class in PYME.IO.DataSources.BGSDataSource)
(class in PYME.ParallelTasks.HDFTaskQueue)
DataChanged() (PYME.DSView.dsviewer.DSViewFrame method)
datafrompipeline() (in module PYME.misc.shellutils)
dataserver (class in PYME.cluster.dataserver_wsgi)
DataSource (class in PYME.IO.DataSources.AlignDataSource)
(class in PYME.IO.DataSources.BGSDataSource)
(class in PYME.IO.DataSources.BioformatsDataSource)
(class in PYME.IO.DataSources.BufferedDataSource)
(class in PYME.IO.DataSources.ClusterPZFDataSource)
(class in PYME.IO.DataSources.CropDataSource)
(class in PYME.IO.DataSources.DcimgDataSource)
(class in PYME.IO.DataSources.FlatFieldDataSource)
(class in PYME.IO.DataSources.HDFDataSource)
(class in PYME.IO.DataSources.HTTPDataSource)
(class in PYME.IO.DataSources.ImageSeriesDataSource)
(class in PYME.IO.DataSources.MultiviewDataSource)
(class in PYME.IO.DataSources.RandomDataSource)
(class in PYME.IO.DataSources.SupertileDatasource)
(class in PYME.IO.DataSources.TQDataSource)
(class in PYME.IO.DataSources.TiffDataSource)
(class in PYME.IO.DataSources.UnsplitDataSource)
dataSource (PYME.LMVis.filterPane.FilterPanel attribute)
DAVRequestHandler (class in PYME.cluster.webdav)
DAVServer (class in PYME.cluster.webdav)
dBdt() (in module PYME.Analysis.BleachProfile.deMod)
DBSCANClustering (class in PYME.recipes.localisations)
dcfit() (in module PYME.misc.shellutils)
DCIMGFile (class in PYME.IO.dcimg)
deblock() (PYME.Deconv.tq_block_dec.blocking_deconv method)
debounce_radius (PYME.recipes.measurement.DetectPoints2D attribute)
dec (class in PYME.Analysis.PSFEst.dec)
dec_4pi (class in PYME.Deconv.dec)
dec_4pi_c (class in PYME.Deconv.dec)
dec_bead (class in PYME.Deconv.dec)
dec_conv (class in PYME.Deconv.dec)
(class in PYME.Deconv.richardsonLucy)
(class in PYME.Deconv.richardsonLucyMV)
(class in PYME.Deconv.richardsonLucyMVM)
dec_conv_slow (class in PYME.Deconv.dec)
(class in PYME.Deconv.richardsonLucy)
(class in PYME.Deconv.richardsonLucyMV)
(class in PYME.Deconv.richardsonLucyMVM)
dec_psf (class in PYME.Analysis.PSFEst.dec)
dec_test() (in module PYME.Analysis.PSFEst.psfQuality)
dec_wiener (class in PYME.Deconv.wiener)
DecayAnalyser (class in PYME.LMVis.Extras.photophysics)
deClump() (in module PYME.Analysis.points.DeClump.pyDeClump)
deClumpDialog (class in PYME.Analysis.points.DeClump.deClumpGUI)
deClumpedDType() (in module PYME.Analysis.points.DeClump.pyDeClump)
deClumpf() (in module PYME.Analysis.points.DeClump.pyDeClump)
decmod_onestate() (in module PYME.Analysis.BleachProfile.intensProf)
decode() (PYME.contrib.lzw.Decoder method)
decode_json() (PYME.LMVis.views.View class method)
decodefrombytes() (PYME.contrib.lzw.ByteDecoder method)
decodepages() (PYME.contrib.lzw.PagingDecoder method)
Decoder (class in PYME.contrib.lzw)
decompress() (in module PYME.contrib.lzw)
decompZar() (in module PYME.misc.zemax)
deconv() (PYME.Analysis.PSFEst.dec.dec method)
(PYME.Deconv.dec.ICTMDeconvolution method)
(PYME.Deconv.richardsonLucy.RichardsonLucyDeconvolution method)
(PYME.Deconv.richardsonLucyMV.MultiviewRichardsonLucy method)
(PYME.Deconv.richardsonLucyMVM.MotionCompensatingRichardsonLucy method)
(PYME.Deconv.wiener.dec_wiener method)
DeconvMappingBase (class in PYME.Deconv.dec)
Deconvolve (class in PYME.recipes.processing)
DeconvolveMotionCompensating (class in PYME.recipes.processing)
deconvolver (class in PYME.DSView.modules.deconvolution)
deconvp() (PYME.Deconv.dec.ICTMDeconvolution method)
(PYME.Deconv.richardsonLucy.RichardsonLucyDeconvolution method)
DeconvProgressDialog (class in PYME.Deconv.deconvDialogs)
DeconvProgressPanel (class in PYME.Deconv.deconvDialogs)
DeconvSettingsDialog (class in PYME.Deconv.deconvDialogs)
decResult (class in PYME.Deconv.decTask)
decTask (class in PYME.Deconv.decTask)
decThread (class in PYME.Deconv.decThread)
default() (PYME.LMVis.tests.gl_test_objects.TestObjectEncoder method)
DEFAULT_PARAMS (PYME.Acquire.ui.AnalysisSettingsUI.AnalysisDetailsPanel attribute)
default_recipe (PYME.recipes.processing.CaWave attribute)
default_traits_view() (PYME.DSView.modules.psfTools.PSFTools method)
(PYME.DSView.modules.pupilTools.PupilTools method)
(PYME.recipes.base.ModuleBase method)
(PYME.recipes.processing.Deconvolve method)
(PYME.recipes.processing.DeconvolveMotionCompensating method)
default_view (PYME.recipes.base.ModuleBase attribute)
(PYME.recipes.localisations.DensityMapping attribute)
(PYME.recipes.localisations.ExtractTableChannel attribute)
(PYME.recipes.output.HDFOutput attribute)
(PYME.recipes.tablefilters.FilterTable attribute)
(PYME.recipes.tablefilters.FilterTableByIDs attribute)
defaultbase() (in module PYME.misc.shellutils)
DefaultGlass (class in PYME.misc.zemax)
DefaultList (class in PYME.IO.DataSources.BaseDataSource)
defm() (in module PYME.Analysis.BleachProfile.rollins)
DelaunayCircumcentres (class in PYME.recipes.pointcloud)
DelaunayTesselation (class in PYME.recipes.pointcloud)
delete_snapshot() (PYME.LMVis.Extras.animation.VideoPanel method)
delete_tile() (PYME.Analysis.tile_pyramid.NumpyTileIO method)
(PYME.Analysis.tile_pyramid.SqliteTileIO method)
(PYME.Analysis.tile_pyramid.TileIO method)
deleteFiles() (in module PYME.misc.diskCleanup)
DeleteItem() (PYME.DSView.modules.composite.ImageList method)
DeletePage() (PYME.ui.AUIFrame.AUIFrame method)
DensityFilter (class in PYME.Analysis.density_filter)
DensityFitRenderer (class in PYME.LMVis.renderers)
DensityMapping (class in PYME.recipes.localisations)
dependancyGraph() (PYME.recipes.base.ModuleCollection method)
deprecated_name() (in module PYME.IO.tabular)
depth_dec() (in module PYME.Analysis.PSFEst.psfQuality)
depth_loc() (in module PYME.Analysis.PSFEst.psfQuality)
descr (PYME.IO.dataExporter.H5Exporter attribute)
(PYME.IO.dataExporter.NumpyExporter attribute)
(PYME.IO.dataExporter.OMETiffExporter attribute)
(PYME.IO.dataExporter.PSFExporter attribute)
(PYME.IO.dataExporter.TiffSeriesExporter attribute)
(PYME.IO.dataExporter.TiffStackExporter attribute)
(PYME.IO.dataExporter.TxtExporter attribute)
DespeckleFilter (class in PYME.recipes.filters)
destroy() (PYME.Acquire.frameWrangler.FrameWrangler method)
(PYME.Acquire.zScanner.zScanner method)
detach() (PYME.Acquire.Utils.fastTiler.fastTiler method)
Detach() (PYME.Acquire.Utils.vibrationAnalysis.VibrAnal method)
Detatch() (PYME.Acquire.positionTracker.PositionTracker method)
DetectPoints2D (class in PYME.recipes.measurement)
DictSource (class in PYME.IO.tabular)
DictStrBool (in module PYME.misc.mock_traits)
DictStrFloat (in module PYME.misc.mock_traits)
DictStrList (in module PYME.misc.mock_traits)
DictStrStr (in module PYME.misc.mock_traits)
dictToRecarray() (in module PYME.Analysis.processLogger)
DirCache (class in PYME.IO.clusterListing)
DirCollection (class in PYME.cluster.webdav)
direction_data (PYME.recipes.processing.CaWave attribute)
direction_plot (PYME.recipes.processing.CaWave attribute)
DirectionToMask3D (class in PYME.recipes.processing)
dirname (PYME.Acquire.SpoolController.SpoolController attribute)
dirname() (in module PYME.IO.unifiedIO)
disk_usage() (in module PYME.IO.FileUtils.freeSpace)
dispersion_data() (in module PYME.misc.read_agf)
DisplayOpts (class in PYME.DSView.displayOptions)
DisplayPane (class in PYME.LMVis.displayPane)
DisplayPaneHorizontal (class in PYME.LMVis.displayPane)
DisplayPaneLight (class in PYME.LMVis.displayPane)
dispRatio() (in module PYME.Analysis.points.twoColour)
dispSettingsFrame (class in PYME.DSView.displaySettingsPanel)
dispSettingsPanel (class in PYME.DSView.displaySettingsPanel)
dispSettingsPanel2 (class in PYME.DSView.displaySettingsPanel)
distance (PYME.Analysis.Tracking.trackUtils.Track attribute)
DISTANCE (PYME.LMVis.tests.gl_test_objects.Cloud attribute)
distance_to_surface() (in module PYME.Analysis.points.spherical_harmonics)
distanceHistogram3DThreaded() (in module PYME.Analysis.points.DistHist.distHistThreaded)
distanceHistogramThreaded() (in module PYME.Analysis.points.DistHist.distHistThreaded)
DistanceTransform (class in PYME.recipes.processing)
Divide (class in PYME.recipes.base)
dlHd() (PYME.Deconv.richardsonLucyMVM.MotionCompensatingRichardsonLucy method)
dlHd2() (PYME.Deconv.richardsonLucyMVM.MotionCompensatingRichardsonLucy method)
dNdfcn() (in module PYME.Analysis.BleachProfile.intensProf)
dNofcn() (in module PYME.Analysis.BleachProfile.intensProf)
do_COPY() (PYME.cluster.webdav.DAVRequestHandler method)
do_DELETE() (PYME.cluster.webdav.DAVRequestHandler method)
do_GET() (PYME.cluster.dataserver_wsgi.dataserver method)
(PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler method)
(PYME.cluster.webdav.DAVRequestHandler method)
(PYME.util.webframework.JSONAPIRequestHandler method)
do_HEAD() (PYME.cluster.dataserver_wsgi.dataserver method)
(PYME.cluster.webdav.DAVRequestHandler method)
do_LOCK() (PYME.cluster.webdav.DAVRequestHandler method)
do_MKCOL() (PYME.cluster.webdav.DAVRequestHandler method)
do_MOVE() (PYME.cluster.webdav.DAVRequestHandler method)
do_OPTIONS() (PYME.cluster.webdav.DAVRequestHandler method)
do_POST() (PYME.util.webframework.JSONAPIRequestHandler method)
do_proj() (PYME.recipes.processing.ProjectOnVector method)
do_PROPFIND() (PYME.cluster.webdav.DAVRequestHandler method)
do_PROPPATCH() (PYME.cluster.webdav.DAVRequestHandler method)
do_PUT() (PYME.cluster.dataserver_wsgi.dataserver method)
(PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler method)
(PYME.cluster.webdav.DAVRequestHandler method)
do_radial_anal() (in module PYME.Analysis.points.rings)
do_summary_plots() (in module PYME.Analysis.points.rings)
do_UNLOCK() (PYME.cluster.webdav.DAVRequestHandler method)
DockedPanel (class in PYME.LMVis.Extras.dockedPanel)
DoGFilter (class in PYME.recipes.filters)
doNix() (in module PYME.ParallelTasks.taskQueue)
DoNix() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.DSView.scrolledImagePanel.ImagePanel method)
doNothing() (in module PYME.misc.mock_ctypes)
DoPaint() (PYME.Acquire.ui.splashScreen.SplashPanel method)
(PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.DSView.eventLogViewer.eventLogPanel method)
(PYME.DSView.eventLogViewer.eventLogTPanel method)
(PYME.DSView.splashScreen.SplashPanel method)
(PYME.LMVis.imageView.ColourImageViewPanel method)
(PYME.LMVis.imageView.ImageViewPanel method)
(PYME.LMVis.imageView2.ColourImageViewPanel method)
(PYME.LMVis.imageView2.ImageViewPanel method)
(PYME.ui.fastGraph.FastGraphPanel method)
(PYME.ui.histLimits.HistLimitPanel method)
doPostInit() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
doStartLog() (PYME.Acquire.Spooler.Spooler method)
(PYME.Acquire.stackSettings.StackSettings method)
doStopLog() (PYME.Acquire.Spooler.Spooler method)
(PYME.Acquire.stackSettings.StackSettings method)
doTraceDisp() (in module PYME.Analysis.BleachProfile.intensProf)
doTraceDispdl() (in module PYME.Analysis.BleachProfile.intensProf)
doTraceDispdl2() (in module PYME.Analysis.BleachProfile.intensProf)
draw() (PYME.Acquire.positionTracker.TrackerPanel method)
(PYME.Acquire.positionTracker.TrackerPlotPanel method)
(PYME.DSView.fitInfo.fitDispPanel method)
(PYME.DSView.modules.fastGraphPanel.GraphViewPanel method)
(PYME.DSView.modules.graphViewPanel.GraphViewPanel method)
(PYME.DSView.modules.psfTools.CRBViewPanel method)
(PYME.DSView.modules.pupilView.GraphViewPanel method)
(PYME.LMVis.colourPanel.colourPlotPanel method)
(PYME.LMVis.progGraph.progPanel method)
(PYME.contrib.wxPlotPanel.PlotPanel method)
(PYME.recipes.recipeGui.RecipePlotPanel method)
draw_rubberband() (PYME.DSView.modules.graphViewPanel.MyNavigationToolbar method)
(PYME.DSView.modules.pupilView.MyNavigationToolbar method)
DrawButtons() (PYME.ui.manualFoldPanel.CaptionBar method)
DrawContours() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
DrawCrosshairs() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
DrawEllipses() (PYME.ui.autoFoldPanel.CaptionBar method)
(PYME.ui.manualFoldPanel.CaptionBar method)
drawGraph() (in module PYME.misc.depGraph)
DrawIcon() (PYME.ui.manualFoldPanel.CaptionBar method)
DrawLine() (PYME.DSView.modules.svmLabel.manualLabel method)
drawNode() (PYME.Analysis.points.QuadTree.QTrend.QTRendererNode method)
drawNodeDL() (PYME.Analysis.points.QuadTree.QTrend.QTRendererNode method)
drawOverlay() (PYME.DSView.modules.blobMeasure.BlobObject method)
DrawOverlays() (PYME.DSView.fitInfo.FitInfoPanel method)
(PYME.DSView.modules.annotation.Annotater method)
(PYME.DSView.modules.blobMeasure.Measurements method)
(PYME.DSView.modules.manualSegment.manualSegment method)
(PYME.DSView.modules.psfExtraction.PsfExtractor method)
(PYME.DSView.modules.svmLabel.manualLabel method)
(PYME.DSView.point_overlay.PointOverlay method)
(PYME.LMVis.imageView.ImageViewPanel method)
(PYME.LMVis.imageView2.ImageViewPanel method)
DrawPoints() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
drawProgBar() (PYME.Acquire.ui.splashScreen.SplashPanel method)
(PYME.DSView.splashScreen.SplashPanel method)
DrawScaleBar() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
DrawSelection() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
DrawTracks() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
drawTree() (PYME.Analysis.points.QuadTree.pointQT.qtBranchNode method)
(PYME.Analysis.points.QuadTree.pointQT.qtLeafNode method)
(PYME.Analysis.points.QuadTree.pointQTF.qtBranchNode method)
(PYME.Analysis.points.QuadTree.pointQTF.qtLeafNode method)
drift_auto_corr() (in module PYME.LMVis.Extras.fiducial)
drift_correct() (in module PYME.LMVis.Extras.fiducial)
dsa (PYME.Acquire.frameWrangler.FrameWrangler attribute)
dsRefresh() (PYME.DSView.dsviewer.DSViewFrame method)
DSTaskQueue (class in PYME.ParallelTasks.DSTaskQueue)
dsviewer_plugin_callback() (PYME.recipes.base.Filter class method)
DSViewFrame (class in PYME.DSView.dsviewer)
dt (class in PYME.DSView.dsviewer)
(class in PYME.recipes.recipeGui)
dtype (PYME.contrib.gohlke.czifile.CziFile attribute)
dtypes (PYME.Analysis.Tracking.trackUtils.Clump attribute)
DualMarchingCubes (class in PYME.recipes.surface_fitting)
DumbellFitFactory (class in PYME.localization.FitFactories.DumbellFitR)
dummy (class in PYME.localization.FitFactories.Interpolators.baseInterpolator)
DummyFileMember (class in PYME.cluster.webdav)
dumps() (in module PYME.IO.PZFFormat)
duplicateFiles() (in module PYME.IO.clusterDuplication)
DupManager (class in PYME.IO.clusterDuplication)
duration (PYME.LMVis.Extras.animation.EditPanel attribute)
(PYME.LMVis.views.VideoView attribute)
dyedyemod() (in module PYME.Analysis.BleachProfile.rawIntensity)
dyedyemod2() (in module PYME.Analysis.BleachProfile.rawIntensity)
dyedyemod3() (in module PYME.Analysis.BleachProfile.rawIntensity)
dyedyemoda() (in module PYME.Analysis.BleachProfile.rawIntensity)
dyedyemodt() (in module PYME.Analysis.BleachProfile.rawIntensity)
dynamic_update() (PYME.DSView.modules.graphViewPanel.MyNavigationToolbar method)
(PYME.DSView.modules.pupilView.MyNavigationToolbar method)
E
e2mod() (in module PYME.Analysis.BleachProfile.kinModels)
e3mod() (in module PYME.Analysis.BleachProfile.kinModels)
e4mod() (in module PYME.Analysis.BleachProfile.kinModels)
e_field() (PYME.Analysis.PSFGen.fourierHNA.FourierPSF method)
E_field_from_pupil_and_propagator() (in module PYME.Analysis.PSFGen.fourierHNA)
edge_mask_width (PYME.recipes.measurement.DetectPoints2D attribute)
EdgeDB (class in PYME.Analysis.points.EdgeDB.edges)
edgeRejectionPixels (PYME.recipes.tracking.LoadSpeckles attribute)
EditableTreeList (class in PYME.ui.MetadataTree)
EditDialog (class in PYME.LMVis.Extras.animation)
EditGrid (class in PYME.misc.editgrid)
EditListCtrl (class in PYME.ui.editList)
editorBgColour (PYME.contrib.listctrlMixins.TextEditMixin attribute)
(PYME.ui.MetadataTree.TextEditMixin attribute)
editorFgColour (PYME.contrib.listctrlMixins.TextEditMixin attribute)
(PYME.ui.MetadataTree.TextEditMixin attribute)
EditPanel (class in PYME.LMVis.Extras.animation)
EField_from_pupil_and_propagator() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
efunc() (in module PYME.misc.kdFit)
ei2mod() (in module PYME.Analysis.BleachProfile.kinModels)
ei3mod() (in module PYME.Analysis.BleachProfile.kinModels)
eimod() (in module PYME.Analysis.BleachProfile.kinModels)
elect() (PYME.IO.clusterDuplication.DupManager method)
Ellipsoid (class in PYME.LMVis.tests.gl_test_objects)
emg() (in module PYME.localization.Test.fitTestJig)
(in module PYME.localization.Test.fitTestJigSCMOS)
(in module PYME.localization.Test.fitTestJigWC)
eMod() (in module PYME.Analysis.BleachProfile.intensProf)
emod() (in module PYME.Analysis.BleachProfile.kinModels)
eMod2() (in module PYME.Analysis.BleachProfile.intensProf)
eMod3() (in module PYME.Analysis.BleachProfile.intensProf)
eMod4() (in module PYME.Analysis.BleachProfile.intensProf)
eMod5() (in module PYME.Analysis.BleachProfile.intensProf)
emptyListDict (class in PYME.Analysis.points.gen3DTriangs)
EnableJoystick() (PYME.Acquire.microscope.microscope method)
encode() (PYME.contrib.lzw.Encoder method)
encodepages() (PYME.contrib.lzw.PagingEncoder method)
Encoder (class in PYME.contrib.lzw)
encodetobytes() (PYME.contrib.lzw.ByteEncoder method)
end_frame (PYME.recipes.processing.CaWave attribute)
EndSelection() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.DSView.displayOptions.DisplayOpts method)
(PYME.LMVis.imageView.ImageViewPanel method)
(PYME.LMVis.imageView2.ImageViewPanel method)
ensure_VM() (in module PYME.IO.DataSources.BioformatsDataSource)
EntryGrid (class in PYME.misc.editgrid)
Enum (in module PYME.misc.mock_traits)
EnumEditor() (in module PYME.misc.mock_traitsui)
epsilon (PYME.recipes.measurement.ChunkedTravelingSalesperson attribute)
(PYME.recipes.measurement.TravelingSalesperson attribute)
errFunc() (PYME.misc.coverslipGeometries.circGeom method)
error() (PYME.localization.Test.fitTestJig.fitTestJig method)
(PYME.localization.Test.fitTestJigSCMOS.fitTestJig method)
(PYME.localization.Test.fitTestJigWC.fitTestJig method)
errorPlot() (in module PYME.Analysis.binAvg)
estimate_circumcentre_densities() (in module PYME.LMVis.Extras.extra_layers)
estimate_density() (in module PYME.LMVis.Extras.extra_layers)
EstimateFrameZFromStepMetadata (class in PYME.recipes.fudges)
estimateFromSource() (PYME.IO.image.ImageBounds class method)
(PYME.LMVis.visHelpersMin.ImageBounds class method)
eth_mod2() (in module PYME.Analysis.BleachProfile.intensProf)
eth_mod3() (in module PYME.Analysis.BleachProfile.intensProf)
ethet3() (in module PYME.Analysis.BleachProfile.intensProf)
ev() (PYME.Analysis.points.twoColour.lin2Model method)
(PYME.Analysis.points.twoColour.lin3Model method)
(PYME.Analysis.points.twoColour.lin3zModel method)
(PYME.Analysis.points.twoColour.linModel method)
(PYME.Analysis.points.twoColour.sffake method)
(PYME.misc.sffake.sffake method)
evalModel() (PYME.localization.FitFactories.AstigGaussFitFR.GaussianFitFactory class method)
(PYME.localization.FitFactories.AstigGaussGPUFitFR.GaussianFitFactory class method)
(PYME.localization.FitFactories.BeadConvolvedAstigGaussFit.GaussianFitFactory class method)
(PYME.localization.FitFactories.DumbellFitR.DumbellFitFactory class method)
(PYME.localization.FitFactories.GaussFitConstrR.GaussianFitFactory class method)
(PYME.localization.FitFactories.GaussMultifitLinesR.GaussianFitFactory class method)
(PYME.localization.FitFactories.GaussMultifitR.GaussianFitFactory class method)
(PYME.localization.FitFactories.GaussMultifitSR.GaussianFitFactory class method)
(PYME.localization.FitFactories.InterpFitR.PSFFitFactory class method)
(PYME.localization.FitFactories.LatGaussFitFR.GaussianFitFactory class method)
(PYME.localization.FitFactories.MultiviewFitInterpNR.InterpFitFactory class method)
(PYME.localization.FitFactories.PRInterpFitQR.PSFFitFactory class method)
(PYME.localization.FitFactories.PRInterpFitR.PSFFitFactory class method)
(PYME.localization.FitFactories.SpecGaussFitFR.GaussianFitFactory class method)
(PYME.localization.FitFactories.SplitterFitFNR.GaussianFitFactory class method)
(PYME.localization.FitFactories.SplitterFitFusionR.GaussianFitFactory class method)
(PYME.localization.FitFactories.SplitterFitInterpBNR.InterpFitFactory class method)
(PYME.localization.FitFactories.SplitterFitInterpNR.InterpFitFactory class method)
(PYME.localization.FitFactories.SplitterMultifitSR.GaussianFitFactory class method)
evalParams() (PYME.localization.Test.fitTestJigSCMOS.fitTestJig method)
eventFileName (PYME.IO.DataSources.ClusterPZFDataSource.DataSource attribute)
eventify() (in module PYME.simulation.locify)
eventify2() (in module PYME.simulation.locify)
eventInfo (class in PYME.misc.eventSpy)
EventLogger (class in PYME.Acquire.HDFSpooler)
(class in PYME.Acquire.HTTPHDFSpooler)
(class in PYME.Acquire.HTTPSpooler)
(class in PYME.Acquire.QueueSpooler)
(class in PYME.Acquire.Spooler)
eventLogPanel (class in PYME.DSView.eventLogViewer)
eventLogTPanel (class in PYME.DSView.eventLogViewer)
events (PYME.IO.h5rFile.H5RFile attribute)
Ex() (in module PYME.Acquire.protocol)
excepthook() (in module PYME.misc.pyro_tracebacks)
execBG() (in module PYME.Acquire.ExecTools)
execFile() (in module PYME.Acquire.ExecTools)
execFileBG() (in module PYME.Acquire.ExecTools)
execute() (PYME.recipes.base.ArithmaticFilter method)
(PYME.recipes.base.ExtractChannel method)
(PYME.recipes.base.Filter method)
(PYME.recipes.base.JoinChannels method)
(PYME.recipes.base.ModuleBase method)
(PYME.recipes.base.ModuleCollection method)
(PYME.recipes.base.OutputModule method)
(PYME.recipes.fudges.EstimateFrameZFromStepMetadata method)
(PYME.recipes.localisations.AddShellMappedCoordinates method)
(PYME.recipes.localisations.AutocorrelationDriftCorrection method)
(PYME.recipes.localisations.ClusterCountVsImagingTime method)
(PYME.recipes.localisations.DBSCANClustering method)
(PYME.recipes.localisations.DensityMapping method)
(PYME.recipes.localisations.ExtractTableChannel method)
(PYME.recipes.localisations.FiducialCorrection method)
(PYME.recipes.localisations.IDTransientFrames method)
(PYME.recipes.localisations.LabelsFromImage method)
(PYME.recipes.localisations.MeasureClusters3D method)
(PYME.recipes.localisations.MergeClumps method)
(PYME.recipes.localisations.Pipelineify method)
(PYME.recipes.localisations.ProcessColour method)
(PYME.recipes.localisations.SphericalHarmonicShell method)
(PYME.recipes.localisations.TimeBlocks method)
(PYME.recipes.measurement.AddMetadataToMeasurements method)
(PYME.recipes.measurement.BinnedHistogram method)
(PYME.recipes.measurement.ChunkedTravelingSalesperson method)
(PYME.recipes.measurement.DetectPoints2D method)
(PYME.recipes.measurement.FitDumbells method)
(PYME.recipes.measurement.FitPoints method)
(PYME.recipes.measurement.Histogram method)
(PYME.recipes.measurement.IdentifyOverlappingROIs method)
(PYME.recipes.measurement.ImageCumulativeHistogram method)
(PYME.recipes.measurement.ImageHistogram method)
(PYME.recipes.measurement.IntensityAtPoints method)
(PYME.recipes.measurement.MeanNeighbourDistances method)
(PYME.recipes.measurement.Measure2D method)
(PYME.recipes.measurement.MultifitBlobs method)
(PYME.recipes.measurement.NearestNeighbourDistances method)
(PYME.recipes.measurement.PairwiseDistanceHistogram method)
(PYME.recipes.measurement.Plot method)
(PYME.recipes.measurement.TilePhysicalCoords method)
(PYME.recipes.measurement.TravelingSalesperson method)
(PYME.recipes.multiview.CalibrateShifts method)
(PYME.recipes.multiview.FindClumps method)
(PYME.recipes.multiview.Fold method)
(PYME.recipes.multiview.MapAstigZ method)
(PYME.recipes.multiview.MergeClumps method)
(PYME.recipes.multiview.ShiftCorrect method)
(PYME.recipes.pointcloud.DelaunayCircumcentres method)
(PYME.recipes.pointcloud.DelaunayTesselation method)
(PYME.recipes.pointcloud.LocalPointDensity method)
(PYME.recipes.pointcloud.Octree method)
(PYME.recipes.processing.AverageFramesByZStep method)
(PYME.recipes.processing.BackgroundSubtractionMovingAverage method)
(PYME.recipes.processing.Colocalisation method)
(PYME.recipes.processing.ColocalisationEDT method)
(PYME.recipes.processing.DeconvolveMotionCompensating method)
(PYME.recipes.processing.DirectionToMask3D method)
(PYME.recipes.processing.FindCaWaves method)
(PYME.recipes.processing.FlatfiledAndDarkCorrect method)
(PYME.recipes.processing.Gradient2D method)
(PYME.recipes.processing.Gradient3D method)
(PYME.recipes.processing.OpticalFlow method)
(PYME.recipes.processing.ProjectOnVector method)
(PYME.recipes.processing.ResampleZ method)
(PYME.recipes.processing.StatisticsByFrame method)
(PYME.recipes.processing.VectorfieldAngle method)
(PYME.recipes.processing.VectorfieldCurl method)
(PYME.recipes.processing.VectorfieldNorm method)
(PYME.recipes.processing.Watershed method)
(PYME.recipes.processing.WavefrontDetection method)
(PYME.recipes.processing.WavefrontVelocity method)
(PYME.recipes.surface_fitting.DualMarchingCubes method)
(PYME.recipes.surface_fitting.FitSurfaceWithPatches method)
(PYME.recipes.surface_fitting.MarchingTetrahedra method)
(PYME.recipes.tablefilters.AggregateMeasurements method)
(PYME.recipes.tablefilters.ConcatenateTables method)
(PYME.recipes.tablefilters.FilterTable method)
(PYME.recipes.tablefilters.FilterTableByIDs method)
(PYME.recipes.tablefilters.Mapping method)
(PYME.recipes.tablefilters.RandomSubset method)
(PYME.recipes.tablefilters.SelectTableColumns method)
(PYME.recipes.tracking.ExtractTracks method)
(PYME.recipes.tracking.FindClumps method)
(PYME.recipes.tracking.FitFusionTraces method)
(PYME.recipes.tracking.LoadSpeckles method)
(PYME.recipes.tracking.TrackFeatures method)
execute_on_invalidation (PYME.recipes.base.ModuleCollection attribute)
exists() (in module PYME.Acquire.HTTPSpooler)
(PYME.Analysis.tile_pyramid.TileCache method)
(in module PYME.IO.clusterIO)
expired (PYME.cluster.ruleserver.IntegerIDRule attribute)
ExponentialClusterizer (class in PYME.LMVis.tests.gl_test_objects)
Export() (PYME.IO.dataExporter.Exporter method)
(PYME.IO.dataExporter.H5Exporter method)
(PYME.IO.dataExporter.NumpyExporter method)
(PYME.IO.dataExporter.OMETiffExporter method)
(PYME.IO.dataExporter.PSFExporter method)
(PYME.IO.dataExporter.TiffSeriesExporter method)
(PYME.IO.dataExporter.TiffStackExporter method)
(PYME.IO.dataExporter.TxtExporter method)
ExportData() (in module PYME.IO.dataExporter)
ExportDialog (class in PYME.IO.dataExporter)
Exporter (class in PYME.IO.dataExporter)
exporter() (in module PYME.IO.dataExporter)
ExportImageToCluster() (in module PYME.IO.clusterExport)
ExtendContext() (PYME.Analysis.processLogger.ContextManager method)
extension (PYME.IO.dataExporter.H5Exporter attribute)
(PYME.IO.dataExporter.NumpyExporter attribute)
(PYME.IO.dataExporter.OMETiffExporter attribute)
(PYME.IO.dataExporter.PSFExporter attribute)
(PYME.IO.dataExporter.TiffSeriesExporter attribute)
(PYME.IO.dataExporter.TiffStackExporter attribute)
(PYME.IO.dataExporter.TxtExporter attribute)
extensions_map (PYME.cluster.dataserver_wsgi.dataserver attribute)
extract_profile() (in module PYME.Analysis.profile_extraction)
extractAverageTrajectory() (in module PYME.Analysis.points.fiducials)
extractBlobs() (in module PYME.DSView.modules.extractBlobs)
ExtractChannel (class in PYME.recipes.base)
extractFeatures() (in module PYME.Analysis.svmSegment)
extractFeatures2() (in module PYME.Analysis.svmSegment)
extractFrames() (in module PYME.IO.FileUtils.h5ExFrames)
extractFramesF() (in module PYME.IO.FileUtils.h5ExFrames)
extractFromMetadata() (PYME.IO.image.ImageBounds class method)
extractIms() (in module PYME.Analysis.PSFEst.extractImages)
ExtractPupil() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
ExtractTableChannel (class in PYME.recipes.localisations)
ExtractTracks (class in PYME.recipes.tracking)
F
f() (in module PYME.Analysis.points.surfit)
f2() (in module PYME.DSView.htmlServe)
f_dumbell() (in module PYME.localization.FitFactories.DumbellFitR)
f_gauss1d() (in module PYME.localization.FitFactories.SpecGaussFitFR)
f_gauss2d() (in module PYME.localization.FitFactories.GaussFitConstrR)
(in module PYME.localization.FitFactories.GaussMultifitR)
(in module PYME.localization.FitFactories.LatGaussFitFR)
(in module PYME.localization.FitFactories.SplitterFitFusionR)
(in module PYME.localization.FitFactories.SplitterMultifitSR)
f_gauss2d2c() (in module PYME.localization.FitFactories.SplitterFitFNR)
(in module PYME.localization.FitFactories.SplitterFitFusionR)
(in module PYME.localization.FitFactories.SplitterObjFindR)
(in module PYME.localization.FitFactories.SplitterShiftEstFR)
f_gauss2d2cA() (in module PYME.localization.FitFactories.SplitterFitFNR)
(in module PYME.localization.FitFactories.SplitterFitFusionR)
f_gauss2d2ccb() (in module PYME.localization.FitFactories.SplitterFitFNR)
(in module PYME.localization.FitFactories.SplitterFitFusionR)
f_gauss2d_no_bg() (in module PYME.localization.FitFactories.LatGaussFitFR)
f_gauss2dF() (in module PYME.localization.FitFactories.GaussFitConstrR)
(in module PYME.localization.FitFactories.GaussMultifitR)
(in module PYME.localization.FitFactories.LatGaussFitFR)
(in module PYME.localization.FitFactories.SplitterMultifitSR)
f_gauss2dSlow() (in module PYME.localization.FitFactories.GaussFitConstrR)
(in module PYME.localization.FitFactories.GaussMultifitR)
(in module PYME.localization.FitFactories.LatGaussFitFR)
(in module PYME.localization.FitFactories.SplitterMultifitSR)
f_Gauss3d() (in module PYME.localization.FitFactories.Gauss3DFitR)
f_gaussAstigBead() (in module PYME.localization.FitFactories.BeadConvolvedAstigGaussFit)
f_gaussAstigSlow() (in module PYME.localization.FitFactories.AstigGaussFitFR)
f_Interp3d() (in module PYME.localization.autopsf.roifit)
(in module PYME.localization.FitFactories.InterpFitR)
(in module PYME.localization.FitFactories.PRInterpFitQR)
(in module PYME.localization.FitFactories.PRInterpFitR)
f_Interp3d2c() (in module PYME.localization.FitFactories.SplitterFitInterpNR)
f_Interp3d2cr() (in module PYME.localization.autopsf.roifit)
(in module PYME.localization.FitFactories.SplitterFitInterpBNR)
f_Interp3Dmultiview() (in module PYME.localization.FitFactories.MultiviewFitInterpNR)
f_J_gauss2d() (in module PYME.localization.FitFactories.GaussFitConstrR)
f_j_gauss2d() (in module PYME.localization.FitFactories.GaussFitConstrR)
f_J_gauss2d() (in module PYME.localization.FitFactories.GaussMultifitR)
f_j_gauss2d() (in module PYME.localization.FitFactories.GaussMultifitR)
f_J_gauss2d() (in module PYME.localization.FitFactories.LatGaussFitFR)
f_j_gauss2d() (in module PYME.localization.FitFactories.LatGaussFitFR)
f_J_gauss2d() (in module PYME.localization.FitFactories.SplitterMultifitSR)
f_j_gauss2d() (in module PYME.localization.FitFactories.SplitterMultifitSR)
f_J_Interp3d2c() (in module PYME.localization.FitFactories.SplitterFitInterpBNR)
(in module PYME.localization.FitFactories.SplitterFitInterpNR)
f_J_Interp3Dmultiview() (in module PYME.localization.FitFactories.MultiviewFitInterpNR)
f_multiGauss() (in module PYME.localization.FitFactories.GaussMultifitLinesR)
(in module PYME.localization.FitFactories.GaussMultifitR)
(in module PYME.localization.FitFactories.GaussMultifitSR)
(in module PYME.localization.FitFactories.SplitterMultifitSR)
f_multiGaussJ() (in module PYME.localization.FitFactories.GaussMultifitLinesR)
(in module PYME.localization.FitFactories.GaussMultifitR)
(in module PYME.localization.FitFactories.GaussMultifitSR)
(in module PYME.localization.FitFactories.SplitterMultifitSR)
f_multiGaussS() (in module PYME.localization.FitFactories.GaussMultifitLinesR)
(in module PYME.localization.FitFactories.GaussMultifitR)
(in module PYME.localization.FitFactories.GaussMultifitSR)
(in module PYME.localization.FitFactories.SplitterMultifitSR)
f_PSF3d() (in module PYME.localization.FitFactories.LatPSFFitR)
f_rotGaussAstigBead() (in module PYME.localization.FitFactories.BeadConvolvedAstigGaussFit)
face_normals (PYME.recipes.pointcloud.Tesselation attribute)
faces (PYME.recipes.pointcloud.Tesselation attribute)
facsPlotContour() (in module PYME.misc.facsPlot)
facsPlotScatter() (in module PYME.misc.facsPlot)
facsPlotScatter2() (in module PYME.misc.facsPlot)
facsPlotScatterLog() (in module PYME.misc.facsPlot)
fake_push_deconv() (PYME.Deconv.tq_block_dec.blocking_deconv method)
fakeTime() (PYME.Acquire.Spooler.Spooler method)
fast_grey() (in module PYME.DSView.displayOptions)
FastGraphPanel (class in PYME.ui.fastGraph)
fastRectTiler (class in PYME.Acquire.Utils.fastTiler)
fastTiler (class in PYME.Acquire.Utils.fastTiler)
FeatureMean (class in PYME.Analysis.Tracking.trackUtils)
FeaturePlot (class in PYME.Analysis.Tracking.trackUtils)
features (PYME.recipes.tracking.TrackFeatures attribute)
FeatureStd (class in PYME.Analysis.Tracking.trackUtils)
FFBase (class in PYME.localization.FitFactories.FFBase)
fiducial_diagnosis() (in module PYME.LMVis.Extras.fiducial)
fiducial_diagnosis_1() (in module PYME.LMVis.Extras.fiducial)
FiducialCorrection (class in PYME.recipes.localisations)
FIkz() (in module PYME.Analysis.cramerRao)
File (in module PYME.misc.mock_traits)
file_inputs (PYME.recipes.base.ModuleBase attribute)
(PYME.recipes.base.ModuleCollection attribute)
filebytes() (in module PYME.contrib.lzw)
fileFitResult() (PYME.IO.h5rFile.H5RFile method)
fileFormattedResults() (in module PYME.IO.clusterResults)
FileInfo (class in PYME.IO.clusterListing)
FileMember (class in PYME.cluster.webdav)
filename() (PYME.contrib.gohlke.fcsfiles.ConfoCor3Raw method)
FilenameParam (class in PYME.localization.MetaDataEdit)
filePattern (PYME.recipes.base.OutputModule attribute)
(PYME.recipes.output.HDFOutput attribute)
(PYME.recipes.output.ImageOutput attribute)
(PYME.recipes.output.RGBImageOutput attribute)
(PYME.recipes.output.ReportForEachOutput attribute)
(PYME.recipes.output.ReportOutput attribute)
(PYME.recipes.output.XLSOutput attribute)
fileResult() (PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.taskQueue.TaskQueue method)
fileResults() (in module PYME.IO.clusterResults)
(PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.taskQueue.TaskQueue method)
fileTasksForFrames() (PYME.cluster.HTTPRulePusher.HTTPRulePusher method)
(PYME.cluster.HTTPTaskPusher.HTTPTaskPusher method)
fileTasksForInputs() (PYME.cluster.HTTPRulePusher.RecipePusher method)
(PYME.cluster.HTTPTaskPusher.RecipePusher method)
FILETYPE_SERIES_COMPLETE (in module PYME.IO.clusterListing)
FillGrid() (PYME.DSView.modules.psfTools.PSFQualityPanel method)
fillInBlanks() (in module PYME.Analysis.MetaData)
FillSelection() (PYME.DSView.modules.manualSegment.manualSegment method)
(PYME.DSView.modules.svmLabel.manualLabel method)
Filter (class in PYME.recipes.base)
filter() (PYME.Analysis.density_filter.DensityFilter method)
(PYME.recipes.base.ArithmaticFilter method)
(PYME.recipes.base.Filter method)
(PYME.recipes.processing.Watershed method)
filter_quad_results() (in module PYME.Analysis.points.surfit)
filtered (PYME.Analysis.Tracking.trackUtils.TrackManager attribute)
filtered_subblock_directory (PYME.contrib.gohlke.czifile.CziFile attribute)
FilterEditDialog (class in PYME.LMVis.editFilterDialog)
filterer (class in PYME.DSView.modules.filtering)
(class in PYME.DSView.modules.sparkprepare)
filterKeys (PYME.LMVis.filterPane.FilterPane attribute)
FilterPane (class in PYME.DSView.modules.measure.filterPan)
(class in PYME.LMVis.filterPane)
FilterPanel (class in PYME.LMVis.filterPane)
filterRadius (PYME.recipes.processing.OpticalFlow attribute)
filters (PYME.recipes.tablefilters.FilterTable attribute)
FilterTable (class in PYME.recipes.tablefilters)
FilterTableByIDs (class in PYME.recipes.tablefilters)
fImod() (in module PYME.Analysis.BleachProfile.kinModels)
find_and_add_zRange() (in module PYME.Analysis.points.astigmatism.astigTools)
find_catalog() (in module PYME.misc.read_agf)
find_clumps() (in module PYME.Analysis.points.multiview)
find_clumps_within_channel() (in module PYME.Analysis.points.multiview)
find_glassdict() (in module PYME.misc.read_agf)
FindAndFit() (PYME.localization.FitFactories.AstigGaussGPUFitFR.GaussianFitFactory method)
(PYME.localization.FitFactories.GaussMultifitLinesR.GaussianFitFactory method)
(PYME.localization.FitFactories.GaussMultifitR.GaussianFitFactory method)
(PYME.localization.FitFactories.GaussMultifitSR.GaussianFitFactory method)
(PYME.localization.FitFactories.SplitterMultifitSR.GaussianFitFactory method)
FindCaWaves (class in PYME.recipes.processing)
FindClumps (class in PYME.recipes.multiview)
(class in PYME.recipes.tracking)
findClumps() (in module PYME.Analysis.points.DeClump.pyDeClump)
findConnected() (in module PYME.Analysis.points.DeClump.pyDeClump)
findMember() (PYME.cluster.webdav.DirCollection method)
(PYME.cluster.webdav.TempDirCollection method)
FindObjects() (PYME.localization.ofind.ObjectIdentifier method)
(PYME.localization.ofind3d.ObjectIdentifier method)
(PYME.localization.ofind_nofilt.ObjectIdentifier method)
(PYME.localization.ofind_pri.ObjectIdentifier method)
(PYME.localization.ofind_split.ObjectIdentifier method)
(PYME.localization.ofind_xcorr.ObjectIdentifier method)
findRectangularROIs() (in module PYME.Analysis.deTile)
findSlide() (in module PYME.misc.shellutils)
findTracks() (in module PYME.Analysis.Tracking.trackUtils)
findTracks2() (in module PYME.Analysis.Tracking.trackUtils)
findWonkyVectors() (in module PYME.Analysis.points.twoColour)
finish_request() (PYME.cluster.webdav.DAVServer method)
finished (PYME.cluster.ruleserver.IntegerIDRule attribute)
finished() (PYME.Acquire.HTTPSpooler.Spooler method)
fit() (in module PYME.Analysis.points.qpaint)
(PYME.Analysis.points.twoColour.lin2Model method)
(PYME.Analysis.points.twoColour.lin3Model method)
(PYME.Analysis.points.twoColour.lin3zModel method)
(PYME.Analysis.points.twoColour.linModel method)
(PYME.Analysis.points.twoColour.sffake method)
(PYME.localization.autopsf.autopsf.ZernikePSFModel method)
Fit() (PYME.misc.coverslipGeometries.geom method)
fit_influence_radius (PYME.recipes.surface_fitting.FitSurfaceWithPatches attribute)
fit_model() (in module PYME.Analysis.autoencoder_classifier)
fit_quad_surf() (in module PYME.Analysis.points.surfit)
fit_quad_surf_to_neighbourbood() (in module PYME.Analysis.points.surfit)
fit_quad_surfaces() (in module PYME.Analysis.points.surfit)
fit_quad_surfaces_P() (in module PYME.Analysis.points.surfit)
fit_quad_surfaces_Pr() (in module PYME.Analysis.points.surfit)
fit_quad_surfaces_t() (in module PYME.Analysis.points.surfit)
fit_quad_surfaces_tr() (in module PYME.Analysis.points.surfit)
fitallA() (in module PYME.localization.autopsf.roifit)
fitDarktimes() (in module PYME.LMVis.objectDarkMeasure)
fitDecay() (in module PYME.Analysis.BleachProfile.kinModels)
fitDispPanel (class in PYME.DSView.fitInfo)
FitDumbells (class in PYME.recipes.measurement)
FitFactory (in module PYME.localization.FitFactories.AstigGaussFitFR)
(in module PYME.localization.FitFactories.AstigGaussGPUFitFR)
(in module PYME.localization.FitFactories.BeadConvolvedAstigGaussFit)
(in module PYME.localization.FitFactories.DumbellFitR)
(in module PYME.localization.FitFactories.FFBase)
(in module PYME.localization.FitFactories.Gauss3DFitR)
(in module PYME.localization.FitFactories.GaussFitConstrR)
(in module PYME.localization.FitFactories.GaussMultifitLinesR)
(in module PYME.localization.FitFactories.GaussMultifitR)
(in module PYME.localization.FitFactories.GaussMultifitSR)
(in module PYME.localization.FitFactories.InterpFitR)
(in module PYME.localization.FitFactories.InterpFitWFR)
(in module PYME.localization.FitFactories.LatFitCOIR)
(in module PYME.localization.FitFactories.LatGaussFitFR)
(in module PYME.localization.FitFactories.LatObjFindFR)
(in module PYME.localization.FitFactories.LatPSFFitR)
(in module PYME.localization.FitFactories.MultiviewFitInterpNR)
(in module PYME.localization.FitFactories.PRInterpFitQR)
(in module PYME.localization.FitFactories.PRInterpFitR)
(in module PYME.localization.FitFactories.ROIExtractNR)
(in module PYME.localization.FitFactories.SpecGaussFitFR)
(in module PYME.localization.FitFactories.SplitterFitCOIR)
(in module PYME.localization.FitFactories.SplitterFitFNR)
(in module PYME.localization.FitFactories.SplitterFitFusionR)
(in module PYME.localization.FitFactories.SplitterFitInterpBNR)
(in module PYME.localization.FitFactories.SplitterFitInterpNR)
(in module PYME.localization.FitFactories.SplitterMultifitSR)
(in module PYME.localization.FitFactories.SplitterObjFindR)
(in module PYME.localization.FitFactories.SplitterROIExtractNR)
(in module PYME.localization.FitFactories.SplitterShiftEstFR)
FitFactory() (in module PYME.localization.FitFactories.ConfocCOIR)
fitFluorBrightness() (in module PYME.Analysis.BleachProfile.kinModels)
fitFluorBrightnessT() (in module PYME.Analysis.BleachProfile.kinModels)
FitFusionTraces (class in PYME.recipes.tracking)
fitIndep() (in module PYME.Analysis.points.twoColour)
FitInfoPanel (class in PYME.DSView.fitInfo)
FitJumpSizeDist() (in module PYME.Analysis.Tracking.trackUtils)
fitKD() (in module PYME.misc.kdFit)
fitMod (PYME.localization.remFitBuf.fitTask attribute)
fITmod() (in module PYME.Analysis.BleachProfile.kinModels)
fITmod2() (in module PYME.Analysis.BleachProfile.kinModels)
FitModel_N() (in module PYME.Analysis.BleachProfile.rollins)
FitModel_NB() (in module PYME.Analysis.BleachProfile.rollins)
FitModelG() (in module PYME.Analysis.BleachProfile.kinModels)
fitModule (PYME.recipes.measurement.FitPoints attribute)
fitOnTimes() (in module PYME.Analysis.BleachProfile.kinModels)
FitPoints (class in PYME.recipes.measurement)
fitPtA() (in module PYME.Analysis.points.surfit)
fitPts() (in module PYME.Analysis.points.surfit)
fitPtsA() (in module PYME.Analysis.points.surfit)
fitPtsAP() (in module PYME.Analysis.points.surfit)
fitPtsAt() (in module PYME.Analysis.points.surfit)
fitResult (class in PYME.localization.remFitBuf)
FitResult() (in module PYME.localization.FitFactories.BeadConvolvedAstigGaussFit)
(in module PYME.localization.FitFactories.ConfocCOIR)
(in module PYME.localization.FitFactories.DumbellFitR)
(in module PYME.localization.FitFactories.Gauss3DFitR)
(in module PYME.localization.FitFactories.GaussFitConstrR)
(in module PYME.localization.FitFactories.GaussMultifitLinesR)
(in module PYME.localization.FitFactories.GaussMultifitR)
(in module PYME.localization.FitFactories.InterpFitR)
(in module PYME.localization.FitFactories.LatFitCOIR)
(in module PYME.localization.FitFactories.LatGaussFitFR)
(in module PYME.localization.FitFactories.LatObjFindFR)
(in module PYME.localization.FitFactories.LatPSFFitR)
(in module PYME.localization.FitFactories.MultiviewFitInterpNR)
(in module PYME.localization.FitFactories.PRInterpFitQR)
(in module PYME.localization.FitFactories.PRInterpFitR)
(in module PYME.localization.FitFactories.SpecGaussFitFR)
(in module PYME.localization.FitFactories.SplitterFitCOIR)
(in module PYME.localization.FitFactories.SplitterFitFNR)
(in module PYME.localization.FitFactories.SplitterFitFusionR)
(in module PYME.localization.FitFactories.SplitterFitInterpBNR)
(in module PYME.localization.FitFactories.SplitterFitInterpNR)
(in module PYME.localization.FitFactories.SplitterMultifitSR)
(in module PYME.localization.FitFactories.SplitterObjFindR)
(in module PYME.localization.FitFactories.SplitterShiftEstFR)
FitResultR() (in module PYME.localization.FitFactories.DumbellFitR)
(in module PYME.simulation.locify)
FitResultsDType() (in module PYME.localization.FitFactories.MultiviewFitInterpNR)
FitResultsSource (class in PYME.IO.tabular)
fitResultsSource() (in module PYME.IO.tabular)
fitROI() (in module PYME.localization.autopsf.roifit)
FitSurfaceWithPatches (class in PYME.recipes.surface_fitting)
fitTask (class in PYME.localization.remFitBuf)
fitter (class in PYME.DSView.modules.profileFitting)
fitTestJig (class in PYME.localization.Test.fitTestJig)
(class in PYME.localization.Test.fitTestJigSCMOS)
(class in PYME.localization.Test.fitTestJigWC)
FitTrace() (in module PYME.Analysis.BleachProfile.fitRecover)
fix_name() (in module PYME.IO.unifiedIO)
fixEMGain() (in module PYME.Analysis.MetaData)
flat() (in module PYME.DSView.modules.dark_and_flatfield)
flatfieldFilename (PYME.recipes.processing.FlatfiledAndDarkCorrect attribute)
FlatfiledAndDarkCorrect (class in PYME.recipes.processing)
flF2() (in module PYME.Analysis.BleachProfile.deMod)
flF2Mod() (in module PYME.Analysis.BleachProfile.deMod)
flFpow() (in module PYME.Analysis.BleachProfile.deMod)
flFsq() (in module PYME.Analysis.BleachProfile.deMod)
flFsq1() (in module PYME.Analysis.BleachProfile.deMod)
flip() (PYME.LMVis.Extras.scaleBox.ScaleBoxPanel method)
flipSecondaryAxis() (PYME.DSView.modules.blobMeasure.DataBlock method)
Float (in module PYME.misc.mock_traits)
FloatListParam (class in PYME.localization.MetaDataEdit)
FloatPage() (PYME.contrib.auiFloatBook.AuiNotebookWithFloatingPages method)
FloatParam (class in PYME.localization.MetaDataEdit)
flow_gray() (in module PYME.misc.extraCMaps)
flowScale (PYME.recipes.processing.DeconvolveMotionCompensating attribute)
flush() (PYME.Analysis.tile_pyramid.NumpyTileIO method)
(PYME.Analysis.tile_pyramid.SqliteTileIO method)
(PYME.Analysis.tile_pyramid.TileCache method)
(PYME.Analysis.tile_pyramid.TileIO method)
(PYME.cluster.webdav.BufWriter method)
(PYME.contrib.lzw.Encoder method)
FLUSH_INTERVAL (PYME.IO.h5rFile.H5RFile attribute)
FlushBuffer() (PYME.Acquire.HTTPHDFSpooler.Spooler method)
(PYME.Acquire.HTTPSpooler.Spooler method)
(PYME.Acquire.QueueSpooler.Spooler method)
(PYME.Acquire.Spooler.Spooler method)
flushMetaData() (PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.HDFTaskQueue.HDFTaskQueue method)
fmfROI() (in module PYME.localization.autopsf.roifit)
fmtSlicesUsed() (in module PYME.localization.FitFactories.fitCommon)
FocusLockPanel (class in PYME.Acquire.ui.focus_lock_gui)
Fold (class in PYME.recipes.multiview)
fold() (in module PYME.Analysis.angleFilter)
Fold() (PYME.ui.autoFoldPanel.foldingPane method)
(PYME.ui.manualFoldPanel.foldingPane method)
fold1() (PYME.ui.autoFoldPanel.foldPanel method)
(PYME.ui.manualFoldPanel.foldPanel method)
(PYME.ui.manualFoldPanel.foldingPane method)
foldButton (class in PYME.ui.autoFoldPanel)
(class in PYME.ui.manualFoldPanel)
foldElement (class in PYME.ui.autoFoldPanel)
(class in PYME.ui.manualFoldPanel)
foldingPane (class in PYME.ui.autoFoldPanel)
(class in PYME.ui.manualFoldPanel)
foldPanel (class in PYME.ui.autoFoldPanel)
(class in PYME.ui.manualFoldPanel)
foldX() (in module PYME.Analysis.points.multiview)
followFrames (PYME.recipes.tracking.LoadSpeckles attribute)
format (PYME.misc.TiffImagePlugin.TiffImageFile attribute)
format() (PYME.util.mProfile.colorize_db_t.Parser method)
format_description (PYME.misc.TiffImagePlugin.TiffImageFile attribute)
formField() (PYME.localization.MetaDataEdit.BoolFloatParam method)
(PYME.localization.MetaDataEdit.BoolParam method)
(PYME.localization.MetaDataEdit.ChoiceParam method)
(PYME.localization.MetaDataEdit.FilenameParam method)
(PYME.localization.MetaDataEdit.FloatListParam method)
(PYME.localization.MetaDataEdit.FloatParam method)
(PYME.localization.MetaDataEdit.IntParam method)
(PYME.localization.MetaDataEdit.RangeParam method)
(PYME.localization.MetaDataEdit.StringParam method)
formFields() (PYME.localization.MetaDataEdit.MDParam method)
(PYME.localization.MetaDataEdit.ParamGroup method)
FORWARDS (PYME.Acquire.stackSettings.StackSettings attribute)
fourier_ring_correlation() (in module PYME.Analysis.Colocalisation.correlationCoeffs)
FourierPropagator (class in PYME.Analysis.PSFGen.fourier)
(in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
FourierPropagatorClipHNA (class in PYME.Analysis.PSFGen.fourierHNA)
(class in PYME.Analysis.PSFGen.fourierHNA2)
FourierPropagatorHNA (class in PYME.Analysis.PSFGen.fourierHNA)
(class in PYME.Analysis.PSFGen.fourierHNA2)
FourierPSF (class in PYME.Analysis.PSFGen.fourierHNA)
FractionalThreshold (class in PYME.recipes.processing)
fractionThreshold (PYME.recipes.processing.FractionalThreshold attribute)
frameCOI() (PYME.Acquire.Utils.vibrationAnalysis.VibrAnal method)
framesPerStep (PYME.recipes.localisations.IDTransientFrames attribute)
framesToTime() (in module PYME.Analysis.piecewiseMapping)
FrameWrangler (class in PYME.Acquire.frameWrangler)
frc() (in module PYME.misc.shellutils)
fresult_dtype() (in module PYME.localization.FitFactories.MultiviewFitInterpNR)
from_json() (in module PYME.IO.MetaDataHandler)
fromJSON() (PYME.recipes.base.ModuleCollection class method)
fromMD() (PYME.recipes.base.ModuleCollection class method)
fromMDFile() (PYME.localization.Test.fitTestJig.fitTestJig class method)
(PYME.localization.Test.fitTestJigSCMOS.fitTestJig class method)
(PYME.localization.Test.fitTestJigWC.fitTestJig class method)
FromPoint() (PYME.localization.FitFactories.AstigGaussFitFR.GaussianFitFactory method)
(PYME.localization.FitFactories.AstigGaussGPUFitFR.GaussianFitFactory method)
(PYME.localization.FitFactories.BeadConvolvedAstigGaussFit.GaussianFitFactory method)
(PYME.localization.FitFactories.DumbellFitR.DumbellFitFactory method)
(PYME.localization.FitFactories.FFBase.FFBase method)
(PYME.localization.FitFactories.Gauss3DFitR.Gauss3dFitFactory method)
(PYME.localization.FitFactories.GaussFitConstrR.GaussianFitFactory method)
(PYME.localization.FitFactories.InterpFitR.PSFFitFactory method)
(PYME.localization.FitFactories.InterpFitWFR.WFPSFFitFactory method)
(PYME.localization.FitFactories.LatFitCOIR.COIFitFactory method)
(PYME.localization.FitFactories.LatGaussFitFR.GaussianFitFactory method)
(PYME.localization.FitFactories.LatObjFindFR.GaussianFitFactory method)
(PYME.localization.FitFactories.LatPSFFitR.PSFFitFactory method)
(PYME.localization.FitFactories.MultiviewFitInterpNR.InterpFitFactory method)
(PYME.localization.FitFactories.PRInterpFitQR.PSFFitFactory method)
(PYME.localization.FitFactories.PRInterpFitR.PSFFitFactory method)
(PYME.localization.FitFactories.ROIExtractNR.GaussianFitFactory method)
(PYME.localization.FitFactories.SpecGaussFitFR.GaussianFitFactory method)
(PYME.localization.FitFactories.SplitterFitCOIR.COIFitFactory method)
(PYME.localization.FitFactories.SplitterFitFNR.GaussianFitFactory method)
(PYME.localization.FitFactories.SplitterFitFusionR.GaussianFitFactory method)
(PYME.localization.FitFactories.SplitterFitInterpBNR.InterpFitFactory method)
(PYME.localization.FitFactories.SplitterFitInterpNR.InterpFitFactory method)
(PYME.localization.FitFactories.SplitterObjFindR.GaussianFitFactory method)
(PYME.localization.FitFactories.SplitterROIExtractNR.GaussianFitFactory method)
(PYME.localization.FitFactories.SplitterShiftEstFR.GaussianFitFactory method)
FromPoints() (PYME.localization.FitFactories.FFBase.FFBase method)
fromYAML() (PYME.recipes.base.ModuleCollection class method)
fstat (PYME.contrib.gohlke.tifffile.TIFFfile attribute)
G
g_histfitting() (in module PYME.Analysis.BleachProfile.rollins)
gather_outputs() (PYME.recipes.base.ModuleCollection method)
Gauss2D() (in module PYME.Analysis.points.segmentLL)
(in module PYME.LMVis.rendGauss)
(in module PYME.LMVis.visHelpers)
Gauss3d() (in module PYME.LMVis.visHelpers)
Gauss3dFitFactory (class in PYME.localization.FitFactories.Gauss3DFitR)
Gauss3dFitResultR() (in module PYME.localization.FitFactories.Gauss3DFitR)
GaussFitResult (class in PYME.localization.FitFactories.Gauss3DFitR)
Gaussian3DRenderer (class in PYME.LMVis.renderers)
gaussian_blob_paint() (in module PYME.Analysis.points.rings)
GaussianFilter (class in PYME.recipes.filters)
GaussianFitFactory (class in PYME.localization.FitFactories.AstigGaussFitFR)
(class in PYME.localization.FitFactories.AstigGaussGPUFitFR)
(class in PYME.localization.FitFactories.BeadConvolvedAstigGaussFit)
(class in PYME.localization.FitFactories.GaussFitConstrR)
(class in PYME.localization.FitFactories.GaussMultifitLinesR)
(class in PYME.localization.FitFactories.GaussMultifitR)
(class in PYME.localization.FitFactories.GaussMultifitSR)
(class in PYME.localization.FitFactories.LatGaussFitFR)
(class in PYME.localization.FitFactories.LatObjFindFR)
(class in PYME.localization.FitFactories.ROIExtractNR)
(class in PYME.localization.FitFactories.SpecGaussFitFR)
(class in PYME.localization.FitFactories.SplitterFitFNR)
(class in PYME.localization.FitFactories.SplitterFitFusionR)
(class in PYME.localization.FitFactories.SplitterMultifitSR)
(class in PYME.localization.FitFactories.SplitterObjFindR)
(class in PYME.localization.FitFactories.SplitterROIExtractNR)
(class in PYME.localization.FitFactories.SplitterShiftEstFR)
GaussianFitResultR() (in module PYME.localization.FitFactories.BeadConvolvedAstigGaussFit)
(in module PYME.localization.FitFactories.GaussFitConstrR)
(in module PYME.localization.FitFactories.GaussMultifitLinesR)
(in module PYME.localization.FitFactories.GaussMultifitR)
(in module PYME.localization.FitFactories.LatGaussFitFR)
(in module PYME.localization.FitFactories.LatObjFindFR)
(in module PYME.localization.FitFactories.SpecGaussFitFR)
(in module PYME.localization.FitFactories.SplitterFitFNR)
(in module PYME.localization.FitFactories.SplitterFitFusionR)
(in module PYME.localization.FitFactories.SplitterMultifitSR)
(in module PYME.localization.FitFactories.SplitterObjFindR)
(in module PYME.localization.FitFactories.SplitterShiftEstFR)
gaussianFWHM (PYME.recipes.processing.Deconvolve attribute)
GaussianRenderer (class in PYME.LMVis.renderers)
gaussKernel() (in module PYME.LMVis.rendGauss)
gen2DMask() (in module PYME.Analysis.annealThresh)
gen2DTriangsTF() (in module PYME.Analysis.points.gen3DTriangs)
gen3DBlobs() (in module PYME.Analysis.points.gen3DTriangs)
gen3DTriangs() (in module PYME.Analysis.points.gen3DTriangs)
gen3DTriangsT() (in module PYME.Analysis.points.gen3DTriangs)
gen3DTriangsTF() (in module PYME.Analysis.points.gen3DTriangs)
gen3DTriangsTFC() (in module PYME.Analysis.points.gen3DTriangs)
Gen4PiPSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
gen_autoencoder() (in module PYME.Analysis.autoencoder_classifier)
gen_isosurface() (in module PYME.LMVis.Extras.extra_layers)
gen_isosurface_from_tesselation() (in module PYME.LMVis.Extras.extra_layers)
gen_nb_testdata() (in module PYME.Analysis.BleachProfile.rollins)
gen_octree_from_points() (in module PYME.LMVis.Extras.extra_layers)
gen_quad_rot_surf() (in module PYME.Analysis.points.surfit)
gen_traces_from_speckles() (in module PYME.IO.FileUtils.readSpeckle)
gen_training_data() (in module PYME.Analysis.autoencoder_classifier)
GenAstigPSF() (in module PYME.Analysis.PSFGen.fourier)
(in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
genBeadImage() (in module PYME.Deconv.beadGen)
GenBesselPSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
GenBiplanePSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
GenBlobFindingPanel() (PYME.DSView.modules.blobFinding.blobFinder method)
GenBlobFitPanel() (PYME.DSView.modules.blobFinding.blobFinder method)
GenClippedWidefieldPSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
genClusterDataFilepath() (in module PYME.IO.FileUtils.nameUtils)
genClusterResultFileName() (in module PYME.IO.FileUtils.nameUtils)
GenColourPRIPSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
genContents() (PYME.DSView.modules.playback.PlayPanel method)
genCoords() (in module PYME.Analysis.angleFilter)
(PYME.Acquire.Utils.pointScanner.PointScanner method)
(PYME.Acquire.Utils.pointScanner.PointScanner3D method)
(PYME.Acquire.Utils.tiler.CircularTiler method)
GenCubicPhasePSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
genCurves() (in module PYME.Analysis.PSFGen.genCRBcurves)
genDark() (in module PYME.Analysis.deTile)
genDataFileID() (in module PYME.IO.FileUtils.fileID)
genDataSourceID() (in module PYME.IO.FileUtils.fileID)
genDefaultMask() (in module PYME.Analysis.annealThresh)
GenDHPSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
genEdgeDB() (in module PYME.LMVis.visHelpers)
Generate() (PYME.LMVis.renderers.ColourRenderer method)
(PYME.LMVis.renderers.CurrentRenderer method)
generate() (PYME.recipes.base.OutputModule method)
(PYME.recipes.output.ImageOutput method)
(PYME.recipes.output.RGBImageOutput method)
(PYME.recipes.output.ReportOutput method)
generate_a_pyrex_source() (in module PYME.misc.cython_numpy_monkey)
GenerateBacklashCorrPMFromEventList() (in module PYME.Analysis.piecewiseMapping)
GenerateDataGrid() (PYME.LMVis.importTextDialog.ImportTextDialog method)
GeneratedImage() (in module PYME.IO.image)
GenerateGUI() (PYME.LMVis.renderers.ColourRenderer method)
(PYME.LMVis.renderers.CurrentRenderer method)
GeneratePMFromEventList() (in module PYME.Analysis.piecewiseMapping)
GeneratePMFromProtocolEvents() (in module PYME.Analysis.piecewiseMapping)
genFileID() (in module PYME.IO.FileUtils.fileID)
genFitImage() (in module PYME.localization.FitFactories.InterpFitR)
(in module PYME.localization.FitFactories.MultiviewFitInterpNR)
(in module PYME.localization.FitFactories.PRInterpFitQR)
(in module PYME.localization.FitFactories.PRInterpFitR)
(in module PYME.localization.FitFactories.SplitterFitFNR)
(in module PYME.localization.FitFactories.SplitterFitFusionR)
(in module PYME.localization.FitFactories.SplitterFitInterpBNR)
(in module PYME.localization.FitFactories.SplitterFitInterpNR)
genFnl() (in module PYME.IO.FileUtils.fnlGen)
genFrameID() (in module PYME.IO.FileUtils.fileID)
genGaussPhotonStats() (PYME.DSView.fitInfo.FitInfoPanel method)
genHDFDataFilepath() (in module PYME.IO.FileUtils.nameUtils)
GenHist() (PYME.ui.fastGraph.FastGraphPanel method)
(PYME.ui.histLimits.HistLimitPanel method)
GenICPRIPSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
genIm() (in module PYME.Analysis.Colocalisation.colocScaleDep)
(PYME.LMVis.renderers.CurrentRenderer method)
(PYME.LMVis.renderers.DensityFitRenderer method)
(PYME.LMVis.renderers.Gaussian3DRenderer method)
(PYME.LMVis.renderers.GaussianRenderer method)
(PYME.LMVis.renderers.Histogram3DRenderer method)
(PYME.LMVis.renderers.HistogramRenderer method)
(PYME.LMVis.renderers.LHoodRenderer method)
(PYME.LMVis.renderers.QuadTreeRenderer method)
(PYME.LMVis.renderers.Triangle3DRenderer method)
(PYME.LMVis.renderers.TriangleRenderer method)
(PYME.LMVis.renderers.TriangleRendererW method)
GenImageDialog (class in PYME.LMVis.genImageDialog)
genImageID() (in module PYME.IO.FileUtils.fileID)
genImageTime() (in module PYME.IO.FileUtils.fileID)
genImR() (in module PYME.Analysis.Colocalisation.colocScaleDep)
genImR2() (in module PYME.Analysis.Colocalisation.colocScaleDep)
genIndexAndLabels() (in module PYME.Analysis.points.moments)
genMetaDataFromSourceAndMDH() (in module PYME.Analysis.MetaData)
GenMultiChanZernikeDPSF() (in module PYME.localization.autopsf.roifit)
GenPlayPanel() (PYME.DSView.modules.playback.player method)
genPlots() (in module PYME.Analysis.Colocalisation.colocScaleDep)
GenPRIEField() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
GenPRIPSF() (in module PYME.Analysis.PSFGen.fourier)
(in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
GenPSFPanel() (PYME.DSView.modules.psfExtraction.PsfExtractor method)
GenR3PSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
genResultDirectoryPath() (in module PYME.IO.FileUtils.nameUtils)
genResultFileName() (in module PYME.IO.FileUtils.nameUtils)
genResultsFileID() (in module PYME.IO.FileUtils.fileID)
genResultsText() (PYME.DSView.fitInfo.FitInfoPanel method)
genRGBImage() (in module PYME.Analysis.points.twoColour)
GenRunPositions() (PYME.Acquire.Utils.fastTiler.fastRectTiler method)
GenSAAstigPSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
GenSABesselPSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
GenSAPRIPSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
GenSAPSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
genSequenceID() (in module PYME.Acquire.HTTPSpooler)
GenShiftedPSF() (in module PYME.Analysis.PSFGen.fourier)
(in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
genShiftFieldDirectoryPath() (in module PYME.IO.FileUtils.nameUtils)
genShiftVectorField() (in module PYME.Analysis.points.twoColour)
genShiftVectorFieldLinear() (in module PYME.Analysis.points.twoColour)
genShiftVectorFieldMC() (in module PYME.Analysis.points.twoColour)
genShiftVectorFieldQ() (in module PYME.Analysis.points.twoColour)
genShiftVectorFieldQuad() (in module PYME.Analysis.points.twoColour)
genShiftVectorFieldQuadz() (in module PYME.Analysis.points.twoColour)
genShiftVectorFieldQz() (in module PYME.Analysis.points.twoColour)
genShiftVectorFieldSpline() (in module PYME.Analysis.points.twoColour)
genShiftVectors() (in module PYME.Analysis.points.twoColour)
GenStartMetadata() (PYME.Acquire.microscope.microscope method)
genStartMetadata() (PYME.Acquire.ui.AnalysisSettingsUI.AnalysisSettings method)
genStartParams() (PYME.misc.coverslipGeometries.circGeom method)
genStatus() (PYME.Acquire.microscope.microscope method)
GenStatusText() (in module PYME.LMVis.statusLog)
GenStripePRIPSF() (in module PYME.Analysis.PSFGen.fourier)
(in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
genTraces() (in module PYME.Analysis.BleachProfile.intensProf)
genTracesDE() (in module PYME.Analysis.BleachProfile.intensProf)
GenWidefieldAP() (in module PYME.Analysis.PSFGen.fourier)
GenWidefieldPSF() (in module PYME.Analysis.PSFGen.fourier)
(in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
GenZernikeDAPSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
GenZernikeDonutPSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
GenZernikeDPSF() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
GenZernikePSF() (in module PYME.Analysis.PSFGen.fourier)
(in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
geom (class in PYME.misc.coverslipGeometries)
geom_depth (PYME.DSView.modules.blobMeasure.DataBlock attribute)
geom_length (PYME.DSView.modules.blobMeasure.DataBlock attribute)
geom_width (PYME.DSView.modules.blobMeasure.DataBlock attribute)
get() (in module PYME.config)
(PYME.Analysis.points.QuadTree.pointQT.qtBranchNode method)
(PYME.Analysis.points.QuadTree.pointQT.qtLeafNode method)
(PYME.Analysis.points.QuadTree.pointQTF.qtBranchNode method)
(PYME.Analysis.points.QuadTree.pointQTF.qtLeafNode method)
(PYME.misc.TiffImagePlugin.ImageFileDirectory method)
get3DIsosurf() (PYME.DSView.modules.blobMeasure.BlobObject method)
get_advertised_services() (PYME.misc.pyme_zeroconf.ZCListener method)
(PYME.misc.pyme_zeroconf.ZeroConfNS method)
get_all_glasses() (in module PYME.misc.read_agf)
get_any() (PYME.cluster.rulenodeserver.Rater method)
get_bead_pupil() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
get_camera_physical_roi_origin() (in module PYME.IO.MetaDataHandler)
get_camera_roi_origin() (in module PYME.IO.MetaDataHandler)
get_canvas() (PYME.DSView.modules.graphViewPanel.MyNavigationToolbar method)
(PYME.DSView.modules.pupilView.MyNavigationToolbar method)
(PYME.LMVis.Extras.dockedPanel.DockedPanel method)
get_channel_column() (PYME.IO.tabular.ColourFilter method)
get_channel_ds() (PYME.IO.tabular.ColourFilter method)
get_cleaned_module_list() (PYME.recipes.base.ModuleCollection method)
get_code() (PYME.LMVis.shader_programs.shader_loader.ShaderLoader method)
get_colour_chans() (PYME.IO.tabular.ColourFilter class method)
get_column() (PYME.LMVis.tests.gl_test_objects.GridContainer method)
get_compression_settings() (PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
get_coordinates() (PYME.LMVis.tests.gl_test_objects.HarmonicCellBackground method)
get_custom_protocols() (in module PYME.config)
get_custom_recipes() (in module PYME.config)
get_duration() (PYME.LMVis.Extras.animation.EditDialog method)
get_file() (in module PYME.IO.clusterIO)
(PYME.IO.h5File.H5File method)
get_frame() (PYME.IO.dcimg.DCIMGFile method)
(PYME.IO.h5File.H5File method)
get_free_space() (in module PYME.IO.FileUtils.freeSpace)
(PYME.Acquire.SpoolController.SpoolController method)
get_glob() (PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler method)
get_h5_part() (PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler method)
get_index() (in module PYME.misc.read_agf)
get_info() (PYME.misc.pyme_zeroconf.ZCListener method)
get_init_filename() (in module PYME.config)
get_json_annotations() (PYME.DSView.modules.annotation.Annotater method)
get_labels() (PYME.DSView.modules.annotation.LabelPanel method)
get_labels_from_image() (in module PYME.Analysis.points.cluster_morphology)
(in module PYME.Analysis.points.objectMeasure)
get_layer_tile_coords() (PYME.Analysis.tile_pyramid.ImagePyramid method)
(PYME.Analysis.tile_pyramid.NumpyTileIO method)
(PYME.Analysis.tile_pyramid.SqliteTileIO method)
(PYME.Analysis.tile_pyramid.TileIO method)
get_listing() (PYME.IO.h5File.H5File method)
get_local() (PYME.cluster.rulenodeserver.Rater method)
get_local_data_directory() (in module PYME.IO.FileUtils.nameUtils)
get_local_path() (in module PYME.IO.clusterIO)
get_localip() (in module PYME.cluster.webdav)
get_name() (PYME.LMVis.Extras.animation.EditDialog method)
(PYME.recipes.base.ModuleBase method)
get_normals() (in module PYME.Analysis.points.surfit)
get_ns() (in module PYME.IO.clusterIO)
get_num_slices() (PYME.IO.dcimg.DCIMGFile method)
get_offsets() (PYME.LMVis.tests.gl_test_objects.Clusterizer method)
get_offtime_cdf() (in module PYME.Analysis.points.qpaint)
get_oversize_tile() (PYME.Analysis.tile_pyramid.ImagePyramid method)
get_params() (PYME.recipes.base.ModuleBase method)
get_plugins() (in module PYME.config)
get_points() (PYME.LMVis.tests.gl_test_objects.Clusterizer method)
(PYME.LMVis.tests.gl_test_objects.ExponentialClusterizer method)
get_position_from_events() (in module PYME.Analysis.tile_pyramid)
get_profile_stats() (in module PYME.util.mProfile.tProfile)
get_program() (PYME.LMVis.shader_programs.ShaderProgramFactory.ShaderProgramFactory static method)
get_propagator() (PYME.Analysis.PSFGen.fourierHNA.FourierPropagatorHNA class method)
(PYME.Analysis.PSFGen.fourierHNA2.FourierPropagatorHNA class method)
get_protocol() (in module PYME.Acquire.protocol)
get_protocol_list() (in module PYME.Acquire.protocol)
get_queues() (PYME.cluster.ruleserver.RuleServer method)
get_radius() (PYME.LMVis.tests.gl_test_objects.HarmonicCellBackground method)
get_ratios() (in module PYME.LMVis.dyeRatios)
get_results() (PYME.localization.FitFactories.AstigGaussGPUFitFR.GaussianFitFactory method)
get_roi_locations() (PYME.tileviewer.tileviewer.TileServer method)
get_roi_offset() (PYME.Acquire.microscope.microscope method)
get_row() (PYME.LMVis.tests.gl_test_objects.GridContainer method)
get_scale_box_layer() (PYME.LMVis.Extras.scaleBox.ScaleBoxPanel method)
get_settings() (PYME.LMVis.genImageDialog.GenImageDialog method)
get_shifts() (in module PYME.localization.splitting)
get_slice_shape() (PYME.IO.dcimg.DCIMGFile method)
get_source() (PYME.recipes.output.UnifiedLoader method)
get_splitter_rois() (in module PYME.localization.splitting)
get_spool_subdir() (in module PYME.IO.FileUtils.nameUtils)
get_status() (in module PYME.IO.clusterIO)
(PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler method)
(PYME.cluster.dataserver_wsgi.dataserver method)
get_status_msg() (PYME.Acquire.ExecTools.BGInitTask method)
get_tile() (PYME.Analysis.tile_pyramid.ImagePyramid method)
(PYME.Analysis.tile_pyramid.NumpyTileIO method)
(PYME.Analysis.tile_pyramid.SqliteTileIO method)
(PYME.Analysis.tile_pyramid.TileIO method)
(PYME.tileviewer.tileviewer.TileServer method)
get_web_static_dir() (in module PYME.resources)
GetActiveCameraName() (PYME.Acquire.microscope.microscope method)
GetActiveChans() (PYME.DSView.displayOptions.DisplayOpts method)
getAll() (PYME.Analysis.points.QuadTree.pointQT.qtNode method)
(PYME.Analysis.points.QuadTree.pointQTF.qtNode method)
GetBackground() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
getBackground() (PYME.IO.buffers.backgroundBuffer method)
(PYME.IO.DataSources.BGSDataSource.backgroundBuffer method)
(PYME.IO.DataSources.BGSDataSource.backgroundBufferM method)
(PYME.IO.buffers.backgroundBufferM method)
GetBeadRadius() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
getBestScanner() (in module PYME.Acquire.zScanner)
GetBins() (PYME.DSView.modules.coloc.ColocSettingsDialog method)
(PYME.DSView.modules.fourierRingCorrelation.ColocSettingsDialog method)
GetBlocking() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
GetBlockSize() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
GetBoundingRect() (PYME.Acquire.Utils.fastTiler.fastRectTiler method)
getCalibrationDir() (in module PYME.IO.FileUtils.nameUtils)
getCentroid() (PYME.Acquire.zScanner.zScanner method)
GetChanFilename() (PYME.DSView.modules.composite.ShiftmapSelectionDialog method)
GetChannel() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
GetChans() (PYME.DSView.modules.coloc.ColocSettingsDialog method)
(PYME.DSView.modules.fourierRingCorrelation.ColocSettingsDialog method)
GetChoices() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
GetClumpRadiusMultiplier() (PYME.Analysis.points.DeClump.deClumpGUI.deClumpDialog method)
GetClumpRadiusVariable() (PYME.Analysis.points.DeClump.deClumpGUI.deClumpDialog method)
GetClumpTimeWindow() (PYME.Analysis.points.DeClump.deClumpGUI.deClumpDialog method)
GetColLabelValue() (PYME.LMVis.pipelineView.PipelineTable method)
(PYME.ui.recArrayView.RecArrayTable method)
GetCollapsedIconBitmap() (in module PYME.misc.fbpIcons)
GetCollapsedIconData() (in module PYME.misc.fbpIcons)
GetCollapsedIconImage() (in module PYME.misc.fbpIcons)
getColour() (PYME.LMVis.genImageDialog.GenImageDialog method)
getColourChans() (PYME.IO.tabular.ColourFilter method)
GetColumnSorter() (PYME.contrib.listctrlMixins.ColumnSorterMixin method)
GetColumnWidths() (PYME.contrib.listctrlMixins.ColumnSorterMixin method)
getCompletedTask() (PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.taskQueue.TaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
GetComputerName() (in module PYME.misc.computerName)
getCoords() (PYME.localization.FitFactories.Interpolators.CSInterpolator.CSInterpolator method)
(PYME.localization.FitFactories.Interpolators.CubeSInterpolatorP.CSInterpolator method)
(PYME.localization.FitFactories.Interpolators.CubicSplineInterpolator.CubicSplineInterpolator method)
(PYME.localization.FitFactories.Interpolators.LinearInterpolator.LinearInterpolator method)
(PYME.localization.FitFactories.Interpolators.LinearPInterpolatorP.LinearInterpolator method)
getCorrection() (in module PYME.Analysis.points.twoColour)
getDarkMap() (PYME.localization.remFitBuf.CameraInfoManager method)
getDataErrors() (in module PYME.localization.FitFactories.InterpFitR)
(in module PYME.localization.FitFactories.MultiviewFitInterpNR)
(in module PYME.localization.FitFactories.PRInterpFitQR)
(in module PYME.localization.FitFactories.PRInterpFitR)
(in module PYME.localization.FitFactories.SplitterFitInterpBNR)
(in module PYME.localization.FitFactories.SplitterFitInterpNR)
getDataSourceForFilename() (in module PYME.IO.DataSources)
GetDec() (PYME.recipes.processing.Deconvolve method)
(PYME.recipes.processing.DeconvolveMotionCompensating method)
GetDirection() (PYME.Acquire.stackSettings.StackSettings method)
getDirectorySize() (in module PYME.misc.dirSize)
getDistributorInfo() (in module PYME.cluster.distribution)
getdriftcurves() (in module PYME.misc.shellutils)
getDriftPars() (in module PYME.misc.shellutils)
getdriftxyzFromEvts() (in module PYME.misc.shellutils)
GetEndPos() (PYME.Acquire.stackSettings.StackSettings method)
getEntry() (PYME.Acquire.HTTPHDFSpooler.HttpSpoolMDHandler method)
(PYME.IO.MetaDataHandler.CachingMDHandler method)
(PYME.IO.MetaDataHandler.HDFMDHandler method)
(PYME.IO.MetaDataHandler.MDHandlerBase method)
(PYME.IO.MetaDataHandler.NestedClassMDHandler method)
(PYME.IO.MetaDataHandler.QueueMDHandler method)
(PYME.IO.MetaDataHandler.XMLMDHandler method)
getEntryNames() (PYME.Acquire.HTTPHDFSpooler.HttpSpoolMDHandler method)
(PYME.IO.MetaDataHandler.CachingMDHandler method)
(PYME.IO.MetaDataHandler.HDFMDHandler method)
(PYME.IO.MetaDataHandler.MDHandlerBase method)
(PYME.IO.MetaDataHandler.NestedClassMDHandler method)
(PYME.IO.MetaDataHandler.QueueMDHandler method)
(PYME.IO.MetaDataHandler.XMLMDHandler method)
getEvents() (PYME.IO.DataSources.AlignDataSource.DataSource method)
(PYME.IO.DataSources.BGSDataSource.DataSource method)
(PYME.IO.DataSources.BaseDataSource.BaseDataSource method)
(PYME.IO.DataSources.BioformatsDataSource.DataSource method)
(PYME.IO.DataSources.BufferedDataSource.DataSource method)
(PYME.IO.DataSources.ClusterPZFDataSource.DataSource method)
(PYME.IO.DataSources.CropDataSource.DataSource method)
(PYME.IO.DataSources.DcimgDataSource.DataSource method)
(PYME.IO.DataSources.FlatFieldDataSource.DataSource method)
(PYME.IO.DataSources.HDFDataSource.DataSource method)
(PYME.IO.DataSources.HTTPDataSource.DataSource method)
(PYME.IO.DataSources.ImageSeriesDataSource.DataSource method)
(PYME.IO.DataSources.MultiviewDataSource.DataSource method)
(PYME.IO.DataSources.RandomDataSource.DataSource method)
(PYME.IO.DataSources.SupertileDatasource.DataSource method)
(PYME.IO.DataSources.TQDataSource.DataSource method)
(PYME.IO.DataSources.TiffDataSource.DataSource method)
(PYME.IO.DataSources.UnsplitDataSource.DataSource method)
GetExpandedIconBitmap() (in module PYME.misc.fbpIcons)
GetExpandedIconData() (in module PYME.misc.fbpIcons)
GetExpandedIconImage() (in module PYME.misc.fbpIcons)
getExternalEdges() (in module PYME.Analysis.points.gen3DTriangs)
GetFieldNames() (PYME.LMVis.importTextDialog.ImportMatDialog method)
(PYME.LMVis.importTextDialog.ImportTextDialog method)
getFileMetadata() (in module PYME.IO.FileUtils.fileID)
getFileTags() (in module PYME.IO.FileUtils.fileID)
getFlatfieldMap() (PYME.localization.remFitBuf.CameraInfoManager method)
GetFormat() (PYME.IO.dataExporter.ExportDialog method)
getFPS() (PYME.Acquire.frameWrangler.FrameWrangler method)
getFrame() (PYME.Acquire.frameWrangler.FrameWrangler method)
getFullExistingFilename() (in module PYME.IO.FileUtils.nameUtils)
getFullFilename() (in module PYME.IO.FileUtils.nameUtils)
getGeometricMean() (PYME.LMVis.genImageDialog.GenImageDialog method)
GetGeometry() (in module PYME.misc.coverslipGeometries)
getGraph() (PYME.DSView.modules.blobMeasure.BlobObject method)
getIconPath() (in module PYME.resources)
GetIgnoreZ() (PYME.DSView.modules.composite.CompositeDialog method)
GetImage() (PYME.Acquire.positionTracker.PositionTracker method)
getImage() (PYME.DSView.modules.blobMeasure.BlobObject method)
getImageTags() (in module PYME.IO.FileUtils.fileID)
getInfo() (PYME.IO.tabular.FitResultsSource method)
(PYME.IO.tabular.H5RDSource method)
(PYME.IO.tabular.H5RSource method)
(PYME.IO.tabular.HDFSource method)
(PYME.IO.tabular.MatfileColumnSource method)
(PYME.IO.tabular.MatfileSource method)
(PYME.IO.tabular.RandomSource method)
(PYME.IO.tabular.RecArraySource method)
(PYME.IO.tabular.TextfileSource method)
getInRadius() (in module PYME.Analysis.points.QuadTree.pointQT)
(in module PYME.Analysis.points.QuadTree.pointQTF)
getIntCenter() (in module PYME.Analysis.PSFEst.extractImages)
GetInterp() (PYME.DSView.modules.composite.CompositeDialog method)
GetItemFullname() (PYME.ui.MetadataTree.MetadataPanel method)
getJitterScale() (PYME.LMVis.genImageDialog.GenImageDialog method)
getJitterScaleZ() (PYME.LMVis.genImageDialog.GenImageDialog method)
getJitterVariable() (PYME.LMVis.genImageDialog.GenImageDialog method)
getJitterVariableZ() (PYME.LMVis.genImageDialog.GenImageDialog method)
getLeaves() (PYME.Analysis.points.QuadTree.pointQT.qtBranchNode method)
(PYME.Analysis.points.QuadTree.pointQT.qtLeafNode method)
(PYME.Analysis.points.QuadTree.pointQTF.qtBranchNode method)
(PYME.Analysis.points.QuadTree.pointQTF.qtLeafNode method)
GetLimits() (PYME.ui.histLimits.HistLimitDialog method)
getLinkageCandidates() (PYME.Analysis.Tracking.tracking.Tracker method)
GetListCtrl() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
getListCtrlSelection() (in module PYME.contrib.listctrlMixins)
getLogFileNameServer() (PYME.ParallelTasks.fitMonP.MyFrame method)
getLogFileNameWorker() (PYME.ParallelTasks.fitMonP.MyFrame method)
getLUT() (in module PYME.DSView.arrayViewPanel)
getMappedResults() (PYME.IO.tabular.MappingFilter method)
GetMaster() (PYME.DSView.modules.composite.CompositeDialog method)
getMCProbability() (PYME.LMVis.genImageDialog.GenImageDialog method)
getmdh() (in module PYME.misc.shellutils)
getMembers() (PYME.cluster.webdav.Collection method)
(PYME.cluster.webdav.DirCollection method)
(PYME.cluster.webdav.TempDirCollection method)
getMetadata() (PYME.IO.DataSources.ClusterPZFDataSource.DataSource method)
(PYME.IO.DataSources.HTTPDataSource.DataSource method)
GetMethod() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
GetMixMatrix() (PYME.DSView.modules.unmixing.UnMixSettingsDlg method)
getModuleNames() (in module PYME.recipes.modules)
getMultiviewROIAtPoint() (PYME.localization.FitFactories.FFBase.FFBase method)
GetName() (PYME.DSView.modules.composite.ImageList method)
getNeighbourDists() (PYME.Analysis.points.EdgeDB.edges.EdgeDB method)
getNewID() (in module PYME.DSView.modules.blobMeasure)
getnexttag() (PYME.cluster.webdav.XMLDict_Parser method)
getNodeInfo() (in module PYME.cluster.distribution)
getNS() (in module PYME.misc.pyme_zeroconf)
GetNumberCols() (PYME.LMVis.pipelineView.PipelineTable method)
(PYME.ui.recArrayView.RecArrayTable method)
GetNumberComments() (PYME.LMVis.importTextDialog.ImportTextDialog method)
getNumberOpenTasks() (PYME.ParallelTasks.DSTaskQueue.DSTaskQueue method)
(PYME.ParallelTasks.HDFTaskQueue.HDFTaskQueue method)
(PYME.ParallelTasks.taskQueue.TaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
GetNumberRows() (PYME.LMVis.pipelineView.PipelineTable method)
(PYME.ui.recArrayView.RecArrayTable method)
getNumberTasksCompleted() (PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.taskQueue.TaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
getNumberTasksInProgress() (PYME.ParallelTasks.taskQueue.TaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
GetNumIterationss() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
getNumQueueEvents() (PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
getNumSamples() (PYME.LMVis.genImageDialog.GenImageDialog method)
getNumSlices() (PYME.IO.DataSources.AlignDataSource.DataSource method)
(PYME.IO.DataSources.ArrayDataSource.ArrayDataSource method)
(PYME.IO.DataSources.BGSDataSource.DataSource method)
(PYME.IO.DataSources.BaseDataSource.BaseDataSource method)
(PYME.IO.DataSources.BioformatsDataSource.DataSource method)
(PYME.IO.DataSources.BufferedDataSource.DataSource method)
(PYME.IO.DataSources.ClusterPZFDataSource.DataSource method)
(PYME.IO.DataSources.CropDataSource.DataSource method)
(PYME.IO.DataSources.DcimgDataSource.DataSource method)
(PYME.IO.DataSources.FlatFieldDataSource.DataSource method)
(PYME.IO.DataSources.HDFDataSource.DataSource method)
(PYME.IO.DataSources.HTTPDataSource.DataSource method)
(PYME.IO.DataSources.ImageSeriesDataSource.DataSource method)
(PYME.IO.DataSources.MultiviewDataSource.DataSource method)
(PYME.IO.DataSources.RandomDataSource.DataSource method)
(PYME.IO.DataSources.SupertileDatasource.DataSource method)
(PYME.IO.DataSources.TQDataSource.DataSource method)
(PYME.IO.DataSources.TiffDataSource.DataSource method)
(PYME.IO.DataSources.UnsplitDataSource.DataSource method)
getNumTasksProcessed() (PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
GetOffset() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
(PYME.DSView.modules.unmixing.UnMixSettingsDlg method)
getOpenImages() (in module PYME.misc.shellutils)
GetOpts() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
getOrDefault() (PYME.IO.MetaDataHandler.MDHandlerBase method)
GetPadding() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
GetPadSize() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
getPercentile() (PYME.IO.buffers.bgFrameBuffer method)
(PYME.IO.DataSources.BGSDataSource.bgFrameBuffer method)
(PYME.IO.buffers.bgFrameBufferC method)
getPerimeter() (in module PYME.Analysis.points.gen3DTriangs)
getPhotonNums() (in module PYME.Analysis.BleachProfile.kinModels)
GetPixelSize() (PYME.Acquire.microscope.microscope method)
getPixelSize() (PYME.LMVis.genImageDialog.GenImageDialog method)
GetPixelSize() (PYME.LMVis.importTextDialog.ImportTextDialog method)
getPopupMenu() (PYME.contrib.listctrlMixins.ListCtrlSelectionManagerMix method)
GetPos() (PYME.Acquire.microscope.microscope method)
GetPosRange() (PYME.Acquire.microscope.microscope method)
GetPrevPos() (PYME.Acquire.stackSettings.StackSettings method)
getPrincipalAxis() (in module PYME.Analysis.points.objectMeasure)
getProperties() (PYME.cluster.webdav.DirCollection method)
(PYME.cluster.webdav.DummyFileMember method)
(PYME.cluster.webdav.FileMember method)
(PYME.cluster.webdav.Member method)
(PYME.cluster.webdav.TempDirCollection method)
getPSF() (in module PYME.Analysis.PSFEst.extractImages)
GetPSF() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
(PYME.recipes.processing.Deconvolve method)
getPSF3D() (in module PYME.Analysis.PSFEst.extractImages)
GetPSFFilename() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
getPSFSlice() (in module PYME.Analysis.PSFEst.extractImages)
getQueueData() (PYME.ParallelTasks.DSTaskQueue.DSTaskQueue method)
(PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.HDFTaskQueue.HDFTaskQueue method)
(PYME.ParallelTasks.taskQueue.TaskQueueWithData method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
getQueueInfo() (in module PYME.cluster.distribution)
getQueueMetaData() (PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
getQueueMetaDataKeys() (PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
getQueueNames() (PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
getRatio() (in module PYME.LMVis.dyeRatios)
getReducedFilename() (in module PYME.Acquire.HTTPSpooler)
GetRegion() (PYME.DSView.modules.blobMeasure.Measurements method)
GetRegularisationLambda() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
getRelFilename() (in module PYME.IO.FileUtils.nameUtils)
GetRemovePadding() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
getReqMemChans() (PYME.Acquire.frameWrangler.FrameWrangler method)
getROIAtPoint() (PYME.localization.FitFactories.FFBase.FFBase method)
getSampleData() (in module PYME.Acquire.sampleInformation)
getSampleDataFailsafe() (in module PYME.Acquire.sampleInformation)
getscalar() (PYME.misc.TiffImagePlugin.ImageFileDirectory method)
GetScanChannel() (PYME.Acquire.stackSettings.StackSettings method)
getSchematic() (PYME.DSView.modules.blobMeasure.BlobObject method)
getSchematic3D() (PYME.DSView.modules.blobMeasure.BlobObject method)
GetScrollPixelsPerUnit() (PYME.DSView.scrolledImagePanel.ScrolledImagePanel method)
GetSecondarySortValues() (PYME.contrib.listctrlMixins.ColumnSorterMixin method)
GetSelectedModule() (PYME.recipes.recipeGui.ModuleSelectionDialog method)
GetSelectedPage() (PYME.DSView.dsviewer.DSViewFrame method)
getSelection() (PYME.contrib.listctrlMixins.ListCtrlSelectionManagerMix method)
GetSelections() (PYME.DSView.modules.composite.CompositeDialog method)
GetSeqLength() (PYME.Acquire.stackSettings.StackSettings method)
GetShiftmap() (PYME.DSView.modules.composite.CompositeDialog method)
GetSimpleString() (PYME.IO.MetaDataHandler.MDHandlerBase method)
getSize() (PYME.cluster.webdav.BufWriter method)
getSlice() (PYME.IO.buffers.dataBuffer method)
(PYME.IO.DataSources.AlignDataSource.DataSource method)
(PYME.IO.DataSources.ArrayDataSource.ArrayDataSource method)
(PYME.IO.DataSources.BGSDataSource.DataSource method)
(PYME.IO.DataSources.BGSDataSource.dataBuffer method)
(PYME.IO.DataSources.BaseDataSource.BaseDataSource method)
(PYME.IO.DataSources.BioformatsDataSource.DataSource method)
(PYME.IO.DataSources.BufferedDataSource.DataSource method)
(PYME.IO.DataSources.ClusterPZFDataSource.DataSource method)
(PYME.IO.DataSources.CropDataSource.DataSource method)
(PYME.IO.DataSources.DcimgDataSource.DataSource method)
(PYME.IO.DataSources.FlatFieldDataSource.DataSource method)
(PYME.IO.DataSources.HDFDataSource.DataSource method)
(PYME.IO.DataSources.HTTPDataSource.DataSource method)
(PYME.IO.DataSources.ImageSeriesDataSource.DataSource method)
(PYME.IO.DataSources.MultiviewDataSource.DataSource method)
(PYME.IO.DataSources.RandomDataSource.DataSource method)
(PYME.IO.DataSources.SupertileDatasource.DataSource method)
(PYME.IO.DataSources.TQDataSource.DataSource method)
(PYME.IO.DataSources.TiffDataSource.DataSource method)
(PYME.IO.DataSources.UnsplitDataSource.DataSource method)
(PYME.ParallelTasks.HDFTaskQueue.dataBuffer method)
GetSliceSelection() (PYME.DSView.displayOptions.DisplayOpts method)
getSliceShape() (PYME.IO.DataSources.AlignDataSource.DataSource method)
(PYME.IO.DataSources.ArrayDataSource.ArrayDataSource method)
(PYME.IO.DataSources.BGSDataSource.DataSource method)
(PYME.IO.DataSources.BaseDataSource.BaseDataSource method)
(PYME.IO.DataSources.BioformatsDataSource.DataSource method)
(PYME.IO.DataSources.BufferedDataSource.DataSource method)
(PYME.IO.DataSources.ClusterPZFDataSource.DataSource method)
(PYME.IO.DataSources.CropDataSource.DataSource method)
(PYME.IO.DataSources.DcimgDataSource.DataSource method)
(PYME.IO.DataSources.FlatFieldDataSource.DataSource method)
(PYME.IO.DataSources.HDFDataSource.DataSource method)
(PYME.IO.DataSources.HTTPDataSource.DataSource method)
(PYME.IO.DataSources.ImageSeriesDataSource.DataSource method)
(PYME.IO.DataSources.MultiviewDataSource.DataSource method)
(PYME.IO.DataSources.RandomDataSource.DataSource method)
(PYME.IO.DataSources.SupertileDatasource.DataSource method)
(PYME.IO.DataSources.TQDataSource.DataSource method)
(PYME.IO.DataSources.TiffDataSource.DataSource method)
(PYME.IO.DataSources.UnsplitDataSource.DataSource method)
getSmallDnArrowBitmap() (in module PYME.contrib.TextCtrlAutoComplete)
getSmallDnArrowData() (in module PYME.contrib.TextCtrlAutoComplete)
getSmallDnArrowImage() (in module PYME.contrib.TextCtrlAutoComplete)
getSmallUpArrowBitmap() (in module PYME.contrib.TextCtrlAutoComplete)
getSmallUpArrowData() (in module PYME.contrib.TextCtrlAutoComplete)
getSmallUpArrowImage() (in module PYME.contrib.TextCtrlAutoComplete)
getSoftRender() (PYME.LMVis.genImageDialog.GenImageDialog method)
GetSortImages() (PYME.contrib.listctrlMixins.ColumnSorterMixin method)
(PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
GetSortState() (PYME.contrib.listctrlMixins.ColumnSorterMixin method)
GetSpeciesDescriptor() (PYME.LMVis.Extras.sequentialSpecies.SpeciesDialog method)
getSplitROIAtPoint() (PYME.localization.FitFactories.FFBase.FFBase method)
GetStartMode() (PYME.Acquire.stackSettings.StackSettings method)
getStartParameters() (in module PYME.localization.FitFactories.zEstimators.astigEstimator)
(in module PYME.localization.FitFactories.zEstimators.biplaneEstimator)
(in module PYME.localization.FitFactories.zEstimators.genericDualEstimator)
(in module PYME.localization.FitFactories.zEstimators.genericEstimator)
(in module PYME.localization.FitFactories.zEstimators.priEstimator)
GetStartPos() (PYME.Acquire.stackSettings.StackSettings method)
GetStepSize() (PYME.Acquire.stackSettings.StackSettings method)
getTableData() (PYME.IO.h5rFile.H5RFile method)
GetTags() (PYME.Acquire.positionTracker.PositionTracker method)
getTask() (PYME.ParallelTasks.DSTaskQueue.DSTaskQueue method)
(PYME.ParallelTasks.HDFTaskQueue.HDFTaskQueue method)
(PYME.ParallelTasks.taskQueue.TaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
getTasks() (PYME.ParallelTasks.DSTaskQueue.DSTaskQueue method)
(PYME.ParallelTasks.HDFTaskQueue.HDFTaskQueue method)
(PYME.ParallelTasks.taskQueue.TaskQueue method)
(PYME.ParallelTasks.taskQueue.TaskQueueWithData method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
getTextFileLock() (in module PYME.cluster.dataserver_wsgi)
(in module PYME.cluster.HTTPDataServer)
getThumbnail() (in module PYME.IO.FileUtils.thumbnailDatabase)
GetTrack() (PYME.Acquire.positionTracker.PositionTracker method)
getURL() (in module PYME.DSView.htmlServe)
(PYME.Acquire.HTTPHDFSpooler.Spooler method)
(PYME.Acquire.HTTPSpooler.Spooler method)
GetUseMask() (PYME.DSView.modules.coloc.ColocSettingsDialog method)
getUsername() (in module PYME.IO.FileUtils.nameUtils)
GetValue() (PYME.LMVis.pipelineView.PipelineTable method)
(PYME.ui.histLimits.HistLimitPanel method)
(PYME.ui.recArrayView.RecArrayTable method)
getvar() (in module PYME.misc.shellutils)
getVarianceMap() (PYME.localization.remFitBuf.CameraInfoManager method)
GetVarName() (PYME.LMVis.importTextDialog.ImportMatDialog method)
getVertexEdgeLengths() (PYME.Analysis.points.EdgeDB.edges.EdgeDB method)
getVertexNeighbours() (PYME.Analysis.points.EdgeDB.edges.EdgeDB method)
GetVoxX() (PYME.DSView.voxSizeDialog.VoxSizeDialog method)
GetVoxY() (PYME.DSView.voxSizeDialog.VoxSizeDialog method)
GetVoxZ() (PYME.DSView.voxSizeDialog.VoxSizeDialog method)
getWorkerFPS() (PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
getWorkerNames() (PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
getXML() (PYME.IO.MetaDataHandler.OMEXMLMDHandler method)
GetXSlice() (PYME.IO.dataExporter.ExportDialog method)
GetYSlice() (PYME.IO.dataExporter.ExportDialog method)
getZ() (in module PYME.localization.twist)
getZBounds() (PYME.LMVis.genImageDialog.GenImageDialog method)
GetZrange() (PYME.DSView.modules.coloc.ColocSettingsDialog method)
GetZSlice() (PYME.IO.dataExporter.ExportDialog method)
getZSliceThickness() (PYME.LMVis.genImageDialog.GenImageDialog method)
gfm() (in module PYME.Analysis.BleachProfile.rollins)
Glass (class in PYME.misc.zemax)
glob() (in module PYME.IO.clusterGlob)
glob_test() (in module PYME.Analysis.PSFEst.psfQuality)
globalLHood() (PYME.Analysis.points.segmentLL.segmenter method)
GLShaderLoadException
gmesig() (in module PYME.misc.shellutils)
gmestd() (in module PYME.misc.shellutils)
go() (PYME.Deconv.tq_block_dec.blocking_deconv method)
goalfcn() (in module PYME.Analysis.BleachProfile.kinModels)
gp() (in module PYME.Analysis.points.surfit)
gphotons() (in module PYME.misc.shellutils)
gpn() (in module PYME.Analysis.points.surfit)
gpnA() (in module PYME.Analysis.points.surfit)
gpnA2() (in module PYME.Analysis.points.surfit)
GrabImage() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
GrabPNG() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
GrabPNGToBuffer() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
Gradient2D (class in PYME.recipes.processing)
Gradient3D (class in PYME.recipes.processing)
gradientThreshold (PYME.recipes.processing.WavefrontDetection attribute)
graphs() (PYME.DSView.modules.blobMeasure.Measurements method)
GraphViewPanel (class in PYME.DSView.modules.fastGraphPanel)
(class in PYME.DSView.modules.graphViewPanel)
(class in PYME.DSView.modules.pupilView)
greedy_sort() (in module PYME.Analysis.points.traveling_salesperson.sort)
Green() (in module PYME.misc.extraCMaps)
grepglobals2() (in module PYME.misc.shellutils)
grey_overflow() (in module PYME.misc.extraCMaps)
GreyDilation (class in PYME.recipes.processing)
GreyErosion (class in PYME.recipes.processing)
grff() (in module PYME.Analysis.BleachProfile.rollins)
GridContainer (class in PYME.LMVis.tests.gl_test_objects)
Group() (in module PYME.misc.mock_traitsui)
gt() (in module PYME.Analysis.BleachProfile.intensProf)
gt_mod() (in module PYME.Analysis.BleachProfile.intensProf)
guess_type() (PYME.cluster.dataserver_wsgi.dataserver method)
guessFlat() (in module PYME.Analysis.deTile)
guessH5RImageID() (in module PYME.IO.FileUtils.fileID)
guessUserID() (in module PYME.IO.FileUtils.fileID)
GuiGetDirList() (in module PYME.IO.FileUtils.fnlGen)
GUIInitTask (class in PYME.Acquire.ExecTools)
H
H5Exporter (class in PYME.IO.dataExporter)
H5File (class in PYME.IO.h5File)
H5RDSource (class in PYME.IO.tabular)
h5rDSource() (in module PYME.IO.tabular)
H5RFile (class in PYME.IO.h5rFile)
H5RSource (class in PYME.IO.tabular)
h5rSource() (in module PYME.IO.tabular)
handin() (PYME.cluster.ruleserver.RuleServer method)
HarmonicCell (class in PYME.LMVis.tests.gl_test_objects)
HarmonicCellBackground (class in PYME.LMVis.tests.gl_test_objects)
has_hole() (PYME.LMVis.tests.gl_test_objects.Vesicle method)
has_key() (PYME.misc.TiffImagePlugin.ImageFileDirectory method)
hashString32() (in module PYME.misc.hash32)
HasTraits (class in PYME.misc.mock_traits)
HDFMDHandler (class in PYME.IO.MetaDataHandler)
HDFOutput (class in PYME.recipes.output)
HDFResultsTaskQueue (class in PYME.ParallelTasks.HDFTaskQueue)
HDFSource (class in PYME.IO.tabular)
hdfSource() (in module PYME.IO.tabular)
HDFTaskQueue (class in PYME.ParallelTasks.HDFTaskQueue)
header_dtype_v3 (in module PYME.IO.PZFFormat)
height() (PYME.IO.image.ImageBounds method)
(PYME.LMVis.visHelpersMin.ImageBounds method)
hide() (PYME.DSView.modules.blobMeasure.Measurements method)
hide_in_overview (PYME.recipes.base.ModuleBase attribute)
(PYME.recipes.localisations.DBSCANClustering attribute)
higherMinPtsPerCluster (PYME.recipes.localisations.ClusterCountVsImagingTime attribute)
hist() (in module PYME.Analysis.graphing_filters)
histfitting() (in module PYME.Analysis.BleachProfile.rollins)
HistLimitDialog (class in PYME.ui.histLimits)
HistLimitEditDialog (class in PYME.ui.histLimits)
HistLimitPanel (class in PYME.ui.histLimits)
Histogram (class in PYME.recipes.measurement)
Histogram3DRenderer (class in PYME.LMVis.renderers)
HistogramRenderer (class in PYME.LMVis.renderers)
histone() (in module PYME.misc.shellutils)
hls_to_rgb() (in module PYME.misc.colorsys)
hmod() (in module PYME.Analysis.BleachProfile.kinModels)
hook() (in module PYME.update_version)
hsv_to_rgb() (in module PYME.misc.colorsys)
HTTPRulePusher (class in PYME.cluster.HTTPRulePusher)
HttpSpoolMDHandler (class in PYME.Acquire.HTTPHDFSpooler)
HTTPTaskPusher (class in PYME.cluster.HTTPTaskPusher)
HWNotPresent
I
ib16() (in module PYME.misc.TiffImagePlugin)
ib32() (in module PYME.misc.TiffImagePlugin)
ICTMDeconvolution (class in PYME.Deconv.dec)
id (PYME.LMVis.Extras.animation.EditPanel attribute)
idColumnName (PYME.recipes.tablefilters.FilterTableByIDs attribute)
IdentifyOverlappingROIs (class in PYME.recipes.measurement)
IdFilter (class in PYME.IO.tabular)
idFilter() (in module PYME.IO.tabular)
ids (PYME.recipes.tablefilters.FilterTableByIDs attribute)
IDTransientFrames (class in PYME.recipes.localisations)
iGen() (in module PYME.DSView.modules.blobMeasure)
iglob() (in module PYME.IO.clusterGlob)
il16() (in module PYME.misc.TiffImagePlugin)
il32() (in module PYME.misc.TiffImagePlugin)
image_data (PYME.IO.h5File.H5File attribute)
image_enrichment_and_fraction_at_distance() (in module PYME.Analysis.Colocalisation.edtColoc)
image_to_cmy() (in module PYME.IO.rgb_image)
image_to_rgb() (in module PYME.IO.rgb_image)
ImageBounds (class in PYME.IO.image)
(class in PYME.LMVis.visHelpersMin)
ImageCumulativeHistogram (class in PYME.recipes.measurement)
imageDensityAtDistance() (in module PYME.Analysis.Colocalisation.edtColoc)
ImageFileDirectory (class in PYME.misc.TiffImagePlugin)
ImageFrameSource (class in PYME.IO.clusterExport)
ImageHistogram (class in PYME.recipes.measurement)
ImageList (class in PYME.DSView.modules.composite)
ImageOutput (class in PYME.recipes.output)
ImagePanel (class in PYME.DSView.scrolledImagePanel)
ImagePyramid (class in PYME.Analysis.tile_pyramid)
images() (PYME.DSView.modules.blobMeasure.Measurements method)
ImageStack (class in PYME.IO.image)
imagestats() (in module PYME.misc.shellutils)
ImageViewPanel (class in PYME.LMVis.imageView)
(class in PYME.LMVis.imageView2)
imgBounds (PYME.IO.image.ImageStack attribute)
impfilt() (in module PYME.Analysis.implicitFilter)
impfilt2() (in module PYME.Analysis.implicitFilter)
impfilt3() (in module PYME.Analysis.implicitFilter)
ImportMatDialog (class in PYME.LMVis.importTextDialog)
ImportTextDialog (class in PYME.LMVis.importTextDialog)
imread() (in module PYME.contrib.gohlke.czifile)
(in module PYME.contrib.gohlke.tifffile)
imsave() (in module PYME.contrib.gohlke.tifffile)
imshow() (in module PYME.contrib.gohlke.tifffile)
index (PYME.IO.tabular.ColourFilter attribute)
index() (PYME.DSView.modules.blobMeasure.Measurements method)
(PYME.tileviewer.tileviewer.TileServer method)
index_coeffs() (in module PYME.misc.read_agf)
index_data() (in module PYME.misc.read_agf)
info() (PYME.cluster.ruleserver.IntegerIDRule method)
Init() (PYME.Acquire.protocol.Protocol method)
(PYME.Acquire.protocol.TaskListProtocol method)
(PYME.Acquire.protocol.ZStackTaskListProtocol method)
init_cluster() (PYME.Deconv.tq_block_dec.blocking_deconv method)
init_gui() (in module PYME.Acquire.ExecTools)
init_hardware() (in module PYME.Acquire.ExecTools)
init_pane() (PYME.LMVis.Extras.showShortcuts.ShowShortcuts method)
init_psf() (PYME.Deconv.tq_block_dec.blocking_deconv method)
init_renderers() (in module PYME.LMVis.renderers)
init_tolerance (PYME.recipes.localisations.SphericalHarmonicShell attribute)
InitBG() (in module PYME.Acquire.ExecTools)
InitGUI() (in module PYME.Acquire.ExecTools)
initialize() (PYME.Acquire.microscope.microscope method)
initializeWorkerTimeout() (PYME.ParallelTasks.taskDef.Task method)
InitPlugins() (in module PYME.LMVis.Extras)
Input (class in PYME.recipes.traits)
input (PYME.recipes.localisations.ProcessColour attribute)
(PYME.recipes.localisations.TimeBlocks attribute)
(PYME.recipes.measurement.ChunkedTravelingSalesperson attribute)
(PYME.recipes.measurement.IdentifyOverlappingROIs attribute)
(PYME.recipes.measurement.TravelingSalesperson attribute)
(PYME.recipes.pointcloud.DelaunayCircumcentres attribute)
(PYME.recipes.pointcloud.DelaunayTesselation attribute)
(PYME.recipes.pointcloud.LocalPointDensity attribute)
(PYME.recipes.processing.ResampleZ attribute)
(PYME.recipes.surface_fitting.DualMarchingCubes attribute)
(PYME.recipes.surface_fitting.FitSurfaceWithPatches attribute)
(PYME.recipes.surface_fitting.MarchingTetrahedra attribute)
(PYME.recipes.tablefilters.RandomSubset attribute)
input0 (PYME.recipes.measurement.Plot attribute)
input1 (PYME.recipes.measurement.Plot attribute)
input2 (PYME.recipes.measurement.Plot attribute)
input3 (PYME.recipes.measurement.Plot attribute)
input_image (PYME.recipes.processing.AverageFramesByZStep attribute)
input_localizations (PYME.recipes.pointcloud.Octree attribute)
input_name (PYME.recipes.localisations.SphericalHarmonicShell attribute)
(PYME.recipes.measurement.DetectPoints2D attribute)
(PYME.recipes.multiview.CalibrateShifts attribute)
(PYME.recipes.multiview.FindClumps attribute)
(PYME.recipes.multiview.Fold attribute)
(PYME.recipes.multiview.MapAstigZ attribute)
(PYME.recipes.multiview.MergeClumps attribute)
(PYME.recipes.multiview.ShiftCorrect attribute)
(PYME.recipes.processing.BackgroundSubtractionMovingAverage attribute)
(PYME.recipes.processing.StatisticsByFrame attribute)
input_name_distance_to_shell (PYME.recipes.localisations.AddShellMappedCoordinates attribute)
input_name_phi (PYME.recipes.localisations.AddShellMappedCoordinates attribute)
input_name_r (PYME.recipes.localisations.AddShellMappedCoordinates attribute)
input_name_r_norm (PYME.recipes.localisations.AddShellMappedCoordinates attribute)
input_name_theta (PYME.recipes.localisations.AddShellMappedCoordinates attribute)
input_sample_locations (PYME.recipes.pointcloud.LocalPointDensity attribute)
input_zvals (PYME.recipes.processing.AverageFramesByZStep attribute)
inputChan0 (PYME.recipes.base.JoinChannels attribute)
(PYME.recipes.measurement.NearestNeighbourDistances attribute)
inputChan1 (PYME.recipes.base.JoinChannels attribute)
(PYME.recipes.measurement.NearestNeighbourDistances attribute)
inputChan2 (PYME.recipes.base.JoinChannels attribute)
inputChan3 (PYME.recipes.base.JoinChannels attribute)
inputDirX (PYME.recipes.processing.ProjectOnVector attribute)
inputDirY (PYME.recipes.processing.ProjectOnVector attribute)
inputDriftResults (PYME.recipes.localisations.Pipelineify attribute)
inputEvents (PYME.recipes.localisations.IDTransientFrames attribute)
(PYME.recipes.localisations.Pipelineify attribute)
inputFiducials (PYME.recipes.localisations.FiducialCorrection attribute)
inputFitResults (PYME.recipes.localisations.Pipelineify attribute)
inputFlowX (PYME.recipes.processing.DeconvolveMotionCompensating attribute)
(PYME.recipes.processing.WavefrontVelocity attribute)
inputFlowY (PYME.recipes.processing.DeconvolveMotionCompensating attribute)
(PYME.recipes.processing.WavefrontVelocity attribute)
inputImage (PYME.recipes.fudges.EstimateFrameZFromStepMetadata attribute)
(PYME.recipes.localisations.LabelsFromImage attribute)
(PYME.recipes.measurement.AddMetadataToMeasurements attribute)
(PYME.recipes.measurement.BinnedHistogram attribute)
(PYME.recipes.measurement.FitDumbells attribute)
(PYME.recipes.measurement.FitPoints attribute)
(PYME.recipes.measurement.ImageCumulativeHistogram attribute)
(PYME.recipes.measurement.ImageHistogram attribute)
(PYME.recipes.measurement.IntensityAtPoints attribute)
(PYME.recipes.measurement.MultifitBlobs attribute)
(PYME.recipes.measurement.TilePhysicalCoords attribute)
(PYME.recipes.output.ReportForEachOutput attribute)
(PYME.recipes.processing.ColocalisationEDT attribute)
(PYME.recipes.processing.FlatfiledAndDarkCorrect attribute)
(PYME.recipes.processing.Watershed attribute)
(PYME.recipes.tracking.LoadSpeckles attribute)
inputImageA (PYME.recipes.processing.Colocalisation attribute)
inputImageB (PYME.recipes.processing.Colocalisation attribute)
(PYME.recipes.processing.ColocalisationEDT attribute)
inputIntensity (PYME.recipes.measurement.Measure2D attribute)
(PYME.recipes.processing.FindCaWaves attribute)
inputLabels (PYME.recipes.measurement.Measure2D attribute)
inputLocalizations (PYME.recipes.localisations.DensityMapping attribute)
(PYME.recipes.localisations.FiducialCorrection attribute)
inputMarkers (PYME.recipes.processing.Watershed attribute)
inputMask (PYME.recipes.measurement.BinnedHistogram attribute)
(PYME.recipes.measurement.ImageCumulativeHistogram attribute)
(PYME.recipes.measurement.ImageHistogram attribute)
(PYME.recipes.processing.ColocalisationEDT attribute)
(PYME.recipes.processing.Watershed attribute)
inputMaskA (PYME.recipes.processing.Colocalisation attribute)
inputMaskB (PYME.recipes.processing.Colocalisation attribute)
inputMeasurements (PYME.recipes.measurement.AddMetadataToMeasurements attribute)
(PYME.recipes.measurement.Histogram attribute)
(PYME.recipes.measurement.TilePhysicalCoords attribute)
(PYME.recipes.tablefilters.SelectTableColumns attribute)
(PYME.recipes.tracking.ExtractTracks attribute)
(PYME.recipes.tracking.TrackFeatures attribute)
inputMeasurements1 (PYME.recipes.tablefilters.AggregateMeasurements attribute)
inputMeasurements2 (PYME.recipes.tablefilters.AggregateMeasurements attribute)
inputMeasurements3 (PYME.recipes.tablefilters.AggregateMeasurements attribute)
inputMeasurements4 (PYME.recipes.tablefilters.AggregateMeasurements attribute)
inputName (PYME.recipes.base.ExtractChannel attribute)
(PYME.recipes.base.Filter attribute)
(PYME.recipes.localisations.AddShellMappedCoordinates attribute)
(PYME.recipes.localisations.AutocorrelationDriftCorrection attribute)
(PYME.recipes.localisations.ClusterCountVsImagingTime attribute)
(PYME.recipes.localisations.DBSCANClustering attribute)
(PYME.recipes.localisations.ExtractTableChannel attribute)
(PYME.recipes.localisations.IDTransientFrames attribute)
(PYME.recipes.localisations.LabelsFromImage attribute)
(PYME.recipes.localisations.MeasureClusters3D attribute)
(PYME.recipes.localisations.MergeClumps attribute)
(PYME.recipes.output.CSVOutput attribute)
(PYME.recipes.output.ImageOutput attribute)
(PYME.recipes.output.RGBImageOutput attribute)
(PYME.recipes.output.ReportForEachOutput attribute)
(PYME.recipes.output.ReportOutput attribute)
(PYME.recipes.output.XLSOutput attribute)
(PYME.recipes.processing.DirectionToMask3D attribute)
(PYME.recipes.processing.Gradient2D attribute)
(PYME.recipes.processing.Gradient3D attribute)
(PYME.recipes.processing.OpticalFlow attribute)
(PYME.recipes.processing.WavefrontDetection attribute)
(PYME.recipes.tablefilters.FilterTable attribute)
(PYME.recipes.tablefilters.FilterTableByIDs attribute)
(PYME.recipes.tablefilters.Mapping attribute)
(PYME.recipes.tracking.FindClumps attribute)
inputName0 (PYME.recipes.base.ArithmaticFilter attribute)
(PYME.recipes.tablefilters.ConcatenateTables attribute)
inputName1 (PYME.recipes.base.ArithmaticFilter attribute)
(PYME.recipes.tablefilters.ConcatenateTables attribute)
inputPositions (PYME.recipes.measurement.FitDumbells attribute)
(PYME.recipes.measurement.FitPoints attribute)
(PYME.recipes.measurement.IntensityAtPoints attribute)
(PYME.recipes.measurement.MeanNeighbourDistances attribute)
(PYME.recipes.measurement.PairwiseDistanceHistogram attribute)
inputPositions2 (PYME.recipes.measurement.PairwiseDistanceHistogram attribute)
inputRoiMask (PYME.recipes.processing.Colocalisation attribute)
(PYME.recipes.processing.ColocalisationEDT attribute)
inputs (PYME.recipes.base.ModuleBase attribute)
(PYME.recipes.base.ModuleCollection attribute)
(PYME.recipes.output.HDFOutput attribute)
inputSphericalHarmonics (PYME.recipes.localisations.AddShellMappedCoordinates attribute)
inputTracks (PYME.recipes.tracking.FitFusionTraces attribute)
inputVariables (PYME.recipes.output.HDFOutput attribute)
inputWavefronts (PYME.recipes.processing.FindCaWaves attribute)
(PYME.recipes.processing.WavefrontVelocity attribute)
inputX (PYME.recipes.processing.ProjectOnVector attribute)
(PYME.recipes.processing.VectorfieldAngle attribute)
(PYME.recipes.processing.VectorfieldCurl attribute)
(PYME.recipes.processing.VectorfieldNorm attribute)
inputY (PYME.recipes.processing.ProjectOnVector attribute)
(PYME.recipes.processing.VectorfieldAngle attribute)
(PYME.recipes.processing.VectorfieldCurl attribute)
(PYME.recipes.processing.VectorfieldNorm attribute)
inputZ (PYME.recipes.processing.VectorfieldAngle attribute)
(PYME.recipes.processing.VectorfieldCurl attribute)
(PYME.recipes.processing.VectorfieldNorm attribute)
insert() (PYME.Analysis.points.QuadTree.pointQT.qtBranchNode method)
(PYME.Analysis.points.QuadTree.pointQT.qtLeafNode method)
(PYME.Analysis.points.QuadTree.pointQT.qtNode method)
(PYME.Analysis.points.QuadTree.pointQT.qtRoot method)
(PYME.Analysis.points.QuadTree.pointQTF.qtBranchNode method)
(PYME.Analysis.points.QuadTree.pointQTF.qtLeafNode method)
(PYME.Analysis.points.QuadTree.pointQTF.qtNode method)
(PYME.Analysis.points.QuadTree.pointQTF.qtRoot method)
insert_dispersion_coeffs() (in module PYME.misc.read_agf)
insert_into_full_map() (in module PYME.Analysis.gen_sCMOS_maps)
insertIntoFullMap() (in module PYME.localization.genmaps)
insertRecords() (PYME.Analysis.points.QuadTree.pointQTF.qtBranchNode method)
(PYME.Analysis.points.QuadTree.pointQTF.qtLeafNode method)
install_map() (in module PYME.Analysis.gen_sCMOS_maps)
InstallSpy() (in module PYME.misc.eventSpy)
Instance (in module PYME.misc.mock_traits)
InstanceEditor() (in module PYME.misc.mock_traitsui)
instanceinlist() (in module PYME.IO.MetaDataHandler)
Int (in module PYME.misc.mock_traits)
intdens() (in module PYME.misc.shellutils)
IntegerIDRule (class in PYME.cluster.ruleserver)
IntegrationSliders (class in PYME.Acquire.ui.intsliders)
IntegrationSliders_ (class in PYME.Acquire.ui.intsliders)
IntensityAtPoints (class in PYME.recipes.measurement)
intensityThreshold (PYME.recipes.processing.WavefrontDetection attribute)
intermediateUpdates (PYME.DSView.modules.psfTools.PSFTools attribute)
interp() (PYME.localization.FitFactories.Interpolators.CSInterpolator.CSInterpolator method)
(PYME.localization.FitFactories.Interpolators.CubeSInterpolatorP.CSInterpolator method)
(PYME.localization.FitFactories.Interpolators.CubicSplineInterpolator.CubicSplineInterpolator method)
(PYME.localization.FitFactories.Interpolators.LinearInterpolator.LinearInterpolator method)
(PYME.localization.FitFactories.Interpolators.LinearPInterpolatorP.LinearInterpolator method)
InterpFitFactory (class in PYME.localization.FitFactories.MultiviewFitInterpNR)
(class in PYME.localization.FitFactories.SplitterFitInterpBNR)
(class in PYME.localization.FitFactories.SplitterFitInterpNR)
interpG() (PYME.localization.FitFactories.Interpolators.CSInterpolator.CSInterpolator method)
(PYME.localization.FitFactories.Interpolators.LinearInterpolator.LinearInterpolator method)
intfrombits() (in module PYME.contrib.lzw)
IntParam (class in PYME.localization.MetaDataEdit)
inttobits() (in module PYME.contrib.lzw)
invalidate_data() (PYME.recipes.base.ModuleCollection method)
invalidate_directory() (PYME.IO.clusterListing.DirCache method)
invalidate_parent() (PYME.recipes.base.ModuleBase method)
Invert (class in PYME.recipes.base)
ioLoop() (PYME.cluster.taskWorkerHTTP.taskWorker method)
IQR() (in module PYME.localization.Test.fitTestJigSCMOS)
(in module PYME.localization.Test.fitTestJigWC)
is_bigtiff (PYME.contrib.gohlke.tifffile.TIFFfile attribute)
is_fluoview (PYME.contrib.gohlke.tifffile.TIFFfile attribute)
is_leader() (PYME.IO.clusterDuplication.DupManager method)
is_local() (in module PYME.IO.clusterIO)
is_lsm (PYME.contrib.gohlke.tifffile.TIFFfile attribute)
is_nih (PYME.contrib.gohlke.tifffile.TIFFfile attribute)
is_ome (PYME.contrib.gohlke.tifffile.TIFFfile attribute)
is_palette (PYME.contrib.gohlke.tifffile.TIFFfile attribute)
is_rgb (PYME.contrib.gohlke.tifffile.TIFFfile attribute)
is_splitter_fit (PYME.localization.remFitBuf.fitTask attribute)
is_stk (PYME.contrib.gohlke.tifffile.TIFFfile attribute)
isAlive() (PYME.Deconv.tq_block_dec.blocking_deconv method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
IsChecked() (PYME.contrib.listctrlMixins.CheckListCtrlMixin method)
IsClose (class in PYME.recipes.base)
isComplete() (PYME.IO.DataSources.ClusterPZFDataSource.DataSource method)
isdir() (in module PYME.IO.clusterIO)
IsEmptyCell() (PYME.LMVis.pipelineView.PipelineTable method)
(PYME.ui.recArrayView.RecArrayTable method)
IsMouseWellOutsideWindow() (PYME.contrib.auiFloatBook.AuiNotebookWithFloatingPages method)
isnparray() (in module PYME.misc.shellutils)
isnumber() (in module PYME.LMVis.importTextDialog)
isodata() (in module PYME.Analysis.thresholding)
isodata_f() (in module PYME.Analysis.thresholding)
isosurface3D() (PYME.DSView.modules.blobMeasure.Measurements method)
isRunning() (PYME.Acquire.frameWrangler.FrameWrangler method)
Item() (in module PYME.misc.mock_traitsui)
items() (PYME.misc.TiffImagePlugin.ImageFileDirectory method)
iterations (PYME.DSView.modules.psfTools.PSFTools attribute)
(PYME.recipes.processing.BinaryDilation attribute)
(PYME.recipes.processing.BinaryErosion attribute)
(PYME.recipes.processing.Deconvolve attribute)
J
jitterScale (PYME.recipes.localisations.DensityMapping attribute)
jitterScaleZ (PYME.recipes.localisations.DensityMapping attribute)
jitterVariable (PYME.recipes.localisations.DensityMapping attribute)
jitterVariableZ (PYME.recipes.localisations.DensityMapping attribute)
join() (PYME.Acquire.ExecTools.BGInitTask method)
joinBGInit() (in module PYME.Acquire.ExecTools)
JoinChannels (class in PYME.recipes.base)
JSON_DURATION (PYME.LMVis.views.VideoView attribute)
JSON_LIST_NAME (PYME.LMVis.Extras.animation.VideoPanel attribute)
JSONAPIRequestHandler (class in PYME.util.webframework)
jumpDistModel() (in module PYME.Analysis.Tracking.trackUtils)
jumpDistProb() (in module PYME.Analysis.Tracking.trackUtils)
K
keep_alive() (in module PYME.IO.clusterDuplication)
KEEP_ALIVE_TIMEOUT (PYME.IO.h5File.H5File attribute)
(PYME.IO.h5rFile.H5RFile attribute)
kernelSize (PYME.recipes.processing.DirectionToMask3D attribute)
key (PYME.recipes.measurement.Histogram attribute)
(PYME.recipes.measurement.MeanNeighbourDistances attribute)
(PYME.recipes.measurement.NearestNeighbourDistances attribute)
keys (PYME.recipes.measurement.AddMetadataToMeasurements attribute)
(PYME.recipes.tablefilters.SelectTableColumns attribute)
keys() (PYME.Acquire.microscope.StateManager method)
(PYME.Analysis.Tracking.trackUtils.Clump method)
(PYME.IO.MetaDataHandler.MDHandlerBase method)
(PYME.IO.tabular.CachingResultsFilter method)
(PYME.IO.tabular.CloneSource method)
(PYME.IO.tabular.ColourFilter method)
(PYME.IO.tabular.ConcatenateFilter method)
(PYME.IO.tabular.DictSource method)
(PYME.IO.tabular.FitResultsSource method)
(PYME.IO.tabular.HDFSource method)
(PYME.IO.tabular.MappingFilter method)
(PYME.IO.tabular.MatfileColumnSource method)
(PYME.IO.tabular.MatfileSource method)
(PYME.IO.tabular.RandomSource method)
(PYME.IO.tabular.RecArraySource method)
(PYME.IO.tabular.SelectionFilter method)
(PYME.IO.tabular.TabularBase method)
(PYME.IO.tabular.TextfileSource method)
(PYME.LMVis.workspaceTree.WorkWrap method)
(PYME.misc.TiffImagePlugin.ImageFileDirectory method)
(PYME.recipes.pointcloud.Tesselation method)
kill() (PYME.Deconv.decThread.decThread method)
(PYME.Deconv.tq_block_dec.blocking_deconv method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
kind (PYME.recipes.processing.Projection attribute)
L
Label (class in PYME.recipes.processing)
label (PYME.recipes.processing.SelectLabel attribute)
label_count_key_name (PYME.recipes.localisations.LabelsFromImage attribute)
label_key_name (PYME.recipes.localisations.LabelsFromImage attribute)
labeled() (in module PYME.DSView.displayOptions)
(in module PYME.misc.extraCMaps)
labelKey (PYME.recipes.localisations.MeasureClusters3D attribute)
(PYME.recipes.localisations.MergeClumps attribute)
(PYME.recipes.multiview.MergeClumps attribute)
LabelPanel (class in PYME.DSView.modules.annotation)
(class in PYME.DSView.modules.svmLabel)
LabelsFromImage (class in PYME.recipes.localisations)
labelsKey (PYME.recipes.localisations.ClusterCountVsImagingTime attribute)
LaserSliders (class in PYME.Acquire.ui.lasersliders)
LaserSliders_ (class in PYME.Acquire.ui.lasersliders)
LaserToggles (class in PYME.Acquire.ui.lasersliders)
launch() (PYME.cluster.cluster_of_one.ClusterOfOne method)
launch_browser() (in module PYME.util.fProfile.viewProfile)
launch_cluster_analysis() (PYME.Acquire.SpoolController.SpoolController method)
launch_localize() (in module PYME.cluster.HTTPRulePusher)
(in module PYME.cluster.HTTPTaskPusher)
LaunchAnalysis() (PYME.Acquire.SpoolController.SpoolController method)
layout() (in module PYME.recipes.recipeLayout)
layout_vertical() (in module PYME.recipes.recipeLayout)
leadFrames (PYME.recipes.tracking.LoadSpeckles attribute)
left (PYME.recipes.measurement.BinnedHistogram attribute)
(PYME.recipes.measurement.Histogram attribute)
(PYME.recipes.measurement.ImageHistogram attribute)
Lfunc() (PYME.Analysis.PSFEst.dec.dec_psf method)
(PYME.Deconv.dec.ClassicMappingFFTW method)
(PYME.Deconv.dec.ClassicMappingNP method)
(PYME.Deconv.dec.DeconvMappingBase method)
(PYME.Deconv.dec.SpatialConvolutionMapping method)
(PYME.Deconv.dec.dec_4pi method)
(PYME.Deconv.dec.dec_4pi_c method)
Lhfunc() (PYME.Analysis.PSFEst.dec.dec_psf method)
(PYME.Deconv.dec.ClassicMappingFFTW method)
(PYME.Deconv.dec.ClassicMappingNP method)
(PYME.Deconv.dec.DeconvMappingBase method)
(PYME.Deconv.dec.SpatialConvolutionMapping method)
(PYME.Deconv.dec.dec_4pi method)
(PYME.Deconv.dec.dec_4pi_c method)
LHoodRenderer (class in PYME.LMVis.renderers)
limit_reconstruction_to_support_hull (PYME.recipes.surface_fitting.FitSurfaceWithPatches attribute)
LimitedSizeDict (class in PYME.Acquire.sampleInformation)
lin2Model (class in PYME.Analysis.points.twoColour)
lin3Model (class in PYME.Analysis.points.twoColour)
lin3zModel (class in PYME.Analysis.points.twoColour)
LinearInterpolator (class in PYME.localization.FitFactories.Interpolators.LinearInterpolator)
(class in PYME.localization.FitFactories.Interpolators.LinearPInterpolatorP)
link_route() (in module PYME.Analysis.points.traveling_salesperson.sectioned_two_opt)
linMod() (in module PYME.Analysis.BleachProfile.rawIntensity)
linModel (class in PYME.Analysis.points.twoColour)
List (in module PYME.misc.mock_traits)
list() (PYME.misc.pyme_zeroconf.ZCListener method)
(PYME.misc.pyme_zeroconf.ZeroConfNS method)
list_directory() (in module PYME.IO.clusterListing)
(PYME.IO.clusterListing.DirCache method)
(PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler method)
(PYME.cluster.dataserver_wsgi.dataserver method)
list_directory_p() (in module PYME.IO.clusterListing)
list_h5() (in module PYME.IO.pyme_h5ls)
(PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler method)
listCalibrationDirs() (in module PYME.Analysis.gen_sCMOS_maps)
(in module PYME.localization.genmaps)
ListCtrlAutoWidthMixin (class in PYME.contrib.listctrlMixins)
ListCtrlSelectionManagerMix (class in PYME.contrib.listctrlMixins)
listdir() (in module PYME.IO.clusterIO)
listdirectory() (in module PYME.IO.clusterIO)
ListFloat (in module PYME.misc.mock_traits)
ListInt (in module PYME.misc.mock_traits)
ListRowHighlighter (class in PYME.contrib.listctrlMixins)
ListStr (in module PYME.misc.mock_traits)
ListWrap (class in PYME.IO.dataWrap)
lNdfcn() (in module PYME.Analysis.BleachProfile.intensProf)
lNdfcnDE() (in module PYME.Analysis.BleachProfile.intensProf)
lNofcn() (in module PYME.Analysis.BleachProfile.intensProf)
lNofcnDE() (in module PYME.Analysis.BleachProfile.intensProf)
load() (in module PYME.IO.FileUtils.SPAD)
(PYME.Analysis.tile_pyramid.TileCache method)
Load() (PYME.IO.image.ImageStack method)
load() (PYME.LMVis.Extras.animation.VideoPanel method)
(PYME.misc.TiffImagePlugin.ImageFileDirectory method)
load_byte() (PYME.misc.TiffImagePlugin.ImageFileDirectory method)
load_dispatch (PYME.misc.TiffImagePlugin.ImageFileDirectory attribute)
load_double() (PYME.misc.TiffImagePlugin.ImageFileDirectory method)
load_fiducial_info_from_second_file() (in module PYME.LMVis.Extras.fiducial)
load_float() (PYME.misc.TiffImagePlugin.ImageFileDirectory method)
load_header() (in module PYME.IO.PZFFormat)
load_json() (in module PYME.IO.MetaDataHandler)
load_long() (PYME.misc.TiffImagePlugin.ImageFileDirectory method)
load_ply() (in module PYME.IO.FileUtils.ply)
load_psf() (in module PYME.IO.load_psf)
load_rational() (PYME.misc.TiffImagePlugin.ImageFileDirectory method)
load_recipe_from_mdh() (PYME.recipes.recipeGui.PipelineRecipeManager method)
load_shiftmap() (in module PYME.Analysis.points.multiview)
load_short() (PYME.misc.TiffImagePlugin.ImageFileDirectory method)
load_stl_binary() (in module PYME.IO.FileUtils.stl)
load_string() (PYME.misc.TiffImagePlugin.ImageFileDirectory method)
load_undefined() (PYME.misc.TiffImagePlugin.ImageFileDirectory method)
load_view() (PYME.LMVis.Extras.saved_views.ViewPanel method)
load_wisdom() (in module PYME.Deconv.fftwWisdom)
loadDark() (in module PYME.IO.FileUtils.SPAD)
LoadData() (PYME.DSView.dsviewer.MyApp method)
loadFile() (PYME.Analysis.svmSegment.svmClassifier method)
loadInput() (PYME.recipes.base.ModuleCollection method)
loadMode() (in module PYME.DSView.modules)
loadModule() (in module PYME.DSView.modules)
LoadModule() (PYME.DSView.dsviewer.DSViewFrame method)
LoadPerspective() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
loadpickled() (in module PYME.misc.shellutils)
loadRaw() (in module PYME.IO.FileUtils.SPAD)
LoadRecipe() (PYME.recipes.recipeGui.RecipeManager method)
LoadRecipeText() (PYME.recipes.recipeGui.PipelineRecipeManager method)
(PYME.recipes.recipeGui.RecipeManager method)
loads() (in module PYME.IO.PZFFormat)
LoadSpeckles (class in PYME.recipes.tracking)
loc_test() (in module PYME.Analysis.PSFEst.psfQuality)
local_or_temp_filename() (in module PYME.IO.unifiedIO)
LocalMaxima (class in PYME.recipes.processing)
LocalPointDensity (class in PYME.recipes.pointcloud)
locate() (in module PYME.misc.locate)
locate_file() (in module PYME.IO.clusterIO)
Location (class in PYME.tileviewer.tileviewer)
locify() (in module PYME.simulation.locify)
log_error() (PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler method)
log_message() (PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler method)
(PYME.cluster.webdav.DAVRequestHandler method)
log_request() (PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler method)
(PYME.util.webframework.JSONAPIRequestHandler method)
log_stream() (in module PYME.cluster.PYMERuleServer)
log_url (PYME.cluster.taskWorkerHTTP.TaskError attribute)
logEvent() (in module PYME.Acquire.eventLog)
(PYME.Acquire.HDFSpooler.EventLogger method)
(PYME.Acquire.HTTPHDFSpooler.EventLogger method)
(PYME.Acquire.HTTPSpooler.EventLogger method)
(PYME.Acquire.QueueSpooler.EventLogger method)
(PYME.Acquire.Spooler.EventLogger method)
logger (in module PYME.IO.dcimg)
LogicalAnd (class in PYME.recipes.base)
logparser (class in PYME.DSView.logparser)
logQueueEvent() (PYME.ParallelTasks.HDFTaskQueue.HDFTaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
logrequests (PYME.cluster.dataserver_wsgi.dataserver attribute)
(PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler attribute)
(PYME.util.webframework.JSONAPIRequestHandler attribute)
logwriter (class in PYME.DSView.logparser)
longAxisDistN() (PYME.DSView.modules.blobMeasure.BlobObject method)
longAxisOrthDist() (PYME.DSView.modules.blobMeasure.BlobObject method)
lookup_astig_z() (in module PYME.Analysis.points.astigmatism.astigTools)
loop_forever() (PYME.cluster.taskWorkerHTTP.taskWorker method)
lorentzianFWHM (PYME.recipes.processing.Deconvolve attribute)
lowerMinPtsPerCluster (PYME.recipes.localisations.ClusterCountVsImagingTime attribute)
lp_poisson() (in module PYME.Analysis.cramerRao)
lp_poisson_n() (in module PYME.Analysis.cramerRao)
M
M_COLLECTION (PYME.cluster.webdav.Member attribute)
M_MEMBER (PYME.cluster.webdav.Member attribute)
mad_0 (PYME.DSView.modules.blobMeasure.DataBlock attribute)
mad_1 (PYME.DSView.modules.blobMeasure.DataBlock attribute)
mad_2 (PYME.DSView.modules.blobMeasure.DataBlock attribute)
Magenta() (in module PYME.misc.extraCMaps)
main() (in module PYME.Acquire.PYMEAcquire)
(in module PYME.Analysis.gen_sCMOS_maps)
(in module PYME.DSView.dsviewer)
(in module PYME.ParallelTasks.fitMonP)
(in module PYME.ParallelTasks.launchWorkers)
(in module PYME.ParallelTasks.taskServerZC)
(in module PYME.ParallelTasks.taskWorkerZC)
(in module PYME.cluster.HTTPDataServer)
(in module PYME.cluster.PYMERuleNodeServer)
(in module PYME.cluster.PYMERuleServer)
(in module PYME.cluster.cluster_of_one)
(in module PYME.cluster.dataserver_wsgi)
(in module PYME.cluster.webdav)
(in module PYME.localization.genmaps)
(in module PYME.recipes.bakeshop)
(in module PYME.recipes.batchProcess)
(in module PYME.recipes.runRecipe)
make() (PYME.LMVis.Extras.animation.VideoPanel method)
make_editor() (PYME.contrib.listctrlMixins.TextEditMixin method)
(PYME.ui.MetadataTree.TextEditMixin method)
make_range_available() (PYME.cluster.ruleserver.IntegerIDRule method)
makeColumnEditable() (PYME.contrib.listctrlMixins.TextEditMixin method)
(PYME.ui.MetadataTree.TextEditMixin method)
makedirs_safe() (in module PYME.cluster.HTTPDataServer)
(in module PYME.cluster.webdav)
makeFilter() (in module PYME.Analysis.points.fiducials)
makeGraph() (in module PYME.misc.depGraph)
makePathUnlessExists() (in module PYME.Analysis.gen_sCMOS_maps)
(in module PYME.localization.genmaps)
manual_selection() (in module PYME.LMVis.Extras.fiducial)
manualLabel (class in PYME.DSView.modules.svmLabel)
manualSegment (class in PYME.DSView.modules.manualSegment)
manualXYBounds (PYME.recipes.localisations.DensityMapping attribute)
map_filename() (in module PYME.Analysis.gen_sCMOS_maps)
map_splitter_coords() (in module PYME.localization.splitting)
map_splitter_coords_() (in module PYME.localization.splitting)
MapAstigZ (class in PYME.recipes.multiview)
Mapping (class in PYME.recipes.tablefilters)
MappingFilter (class in PYME.IO.tabular)
mappingFilter() (in module PYME.IO.tabular)
mappings (PYME.recipes.tablefilters.Mapping attribute)
MarchingTetrahedra (class in PYME.recipes.surface_fitting)
mark_complete() (PYME.cluster.ruleserver.IntegerIDRule method)
mask (PYME.recipes.processing.StatisticsByFrame attribute)
MaskEdges (class in PYME.recipes.filters)
maskFractions() (in module PYME.Analysis.Colocalisation.correlationCoeffs)
maskManders() (in module PYME.Analysis.Colocalisation.correlationCoeffs)
match() (PYME.contrib.TextCtrlAutoComplete.test method)
MatfileColumnSource (class in PYME.IO.tabular)
matfileColumnSource() (in module PYME.IO.tabular)
MatfileSource (class in PYME.IO.tabular)
matfileSource() (in module PYME.IO.tabular)
MAX_ADVERTISEMENTS (PYME.cluster.ruleserver.RuleServer attribute)
max_depth (PYME.recipes.pointcloud.Octree attribute)
max_level_changed() (PYME.ui.histLimits.HistLimitDialog method)
max_m_mode (PYME.recipes.localisations.SphericalHarmonicShell attribute)
MaxFilter (class in PYME.recipes.filters)
MAXIDX (PYME.IO.buffers.bgFrameBuffer attribute)
(PYME.IO.DataSources.BGSDataSource.bgFrameBuffer attribute)
maximumDistanceNM (PYME.recipes.processing.ColocalisationEDT attribute)
maxParticleSize (PYME.recipes.tracking.TrackFeatures attribute)
MAXSHORT (PYME.IO.buffers.bgFrameBuffer attribute)
(PYME.IO.DataSources.BGSDataSource.bgFrameBuffer attribute)
MCProbability (PYME.recipes.localisations.DensityMapping attribute)
mdh (PYME.Analysis.tile_pyramid.ImagePyramid attribute)
(PYME.IO.h5rFile.H5RFile attribute)
MDHandlerBase (class in PYME.IO.MetaDataHandler)
mdhnogui() (in module PYME.misc.shellutils)
MDParam (class in PYME.localization.MetaDataEdit)
MDSource (class in PYME.IO.clusterExport)
MeanFilter (class in PYME.recipes.filters)
MeanNeighbourDistances (class in PYME.recipes.measurement)
meanvards() (in module PYME.localization.genmaps)
(in module PYME.misc.shellutils)
measure() (in module PYME.Analysis.points.objectMeasure)
(in module PYME.LMVis.objectDarkMeasure)
Measure2D (class in PYME.recipes.measurement)
measure_3d() (in module PYME.Analysis.points.cluster_morphology)
measureAligned() (in module PYME.Analysis.points.objectMeasure)
MeasureClusters3D (class in PYME.recipes.localisations)
measureContour (PYME.recipes.measurement.Measure2D attribute)
Measurements (class in PYME.DSView.modules.blobMeasure)
measureObjects() (in module PYME.Analysis.points.objectMeasure)
measureObjectsByID() (in module PYME.Analysis.points.objectMeasure)
(in module PYME.LMVis.objectDarkMeasure)
media (PYME.misc.django_widgets.ClusterFileInput attribute)
MedianFilter (class in PYME.recipes.filters)
Member (class in PYME.cluster.webdav)
memory() (in module PYME.misc.memUsage)
merge_clumps() (in module PYME.Analysis.points.multiview)
MergeClumps (class in PYME.recipes.localisations)
(class in PYME.recipes.multiview)
mergeClumps() (in module PYME.Analysis.points.DeClump.pyDeClump)
mergeEntriesFrom() (PYME.IO.MetaDataHandler.MDHandlerBase method)
metadata (PYME.contrib.gohlke.czifile.CziFile attribute)
(PYME.IO.image.ImageStack attribute)
metadataKeys (PYME.recipes.measurement.AddMetadataToMeasurements attribute)
MetadataPanel (class in PYME.ui.MetadataTree)
method (PYME.recipes.processing.Deconvolve attribute)
(PYME.recipes.processing.DeconvolveMotionCompensating attribute)
(PYME.recipes.processing.Threshold attribute)
mf() (in module PYME.Analysis.points.surfit)
mf2() (in module PYME.Analysis.points.surfit)
mfA() (in module PYME.Analysis.points.surfit)
mfA1() (in module PYME.Analysis.points.surfit)
MICROMETER_CONVERSION_CONSTANT (PYME.LMVis.tests.gl_test_objects.TestObject attribute)
microscope (class in PYME.Acquire.microscope)
min_level_changed() (PYME.ui.histLimits.HistLimitDialog method)
minActivePixels (PYME.recipes.processing.FindCaWaves attribute)
minClumpSize (PYME.recipes.localisations.DBSCANClustering attribute)
(PYME.recipes.tracking.FindClumps attribute)
minDistance (PYME.recipes.processing.LocalMaxima attribute)
minimum_localizations (PYME.recipes.localisations.LabelsFromImage attribute)
minimum_pixel_size (PYME.recipes.pointcloud.Octree attribute)
minimumDistanceNM (PYME.recipes.processing.ColocalisationEDT attribute)
minRegionPixels (PYME.recipes.processing.Label attribute)
minTrackLength (PYME.recipes.tracking.TrackFeatures attribute)
minWaveFrames (PYME.recipes.processing.FindCaWaves attribute)
mirror (PYME.misc.zemax.DefaultGlass attribute)
mirror_file() (in module PYME.IO.clusterIO)
misfallA() (in module PYME.localization.autopsf.roifit)
misfallB() (in module PYME.localization.autopsf.roifit)
misfallB_MP() (in module PYME.localization.autopsf.roifit)
misfitROI() (in module PYME.localization.autopsf.roifit)
mkDefaultPath() (in module PYME.Analysis.gen_sCMOS_maps)
(in module PYME.localization.genmaps)
mkDestPath() (in module PYME.Analysis.gen_sCMOS_maps)
(in module PYME.localization.genmaps)
mock_decorator() (in module PYME.misc.mock_traits)
mod1pk() (in module PYME.Analysis.BleachProfile.intensProf)
mode (PYME.LMVis.renderers.CurrentRenderer attribute)
(PYME.LMVis.renderers.DensityFitRenderer attribute)
(PYME.LMVis.renderers.Gaussian3DRenderer attribute)
(PYME.LMVis.renderers.GaussianRenderer attribute)
(PYME.LMVis.renderers.Histogram3DRenderer attribute)
(PYME.LMVis.renderers.HistogramRenderer attribute)
(PYME.LMVis.renderers.LHoodRenderer attribute)
(PYME.LMVis.renderers.QuadTreeRenderer attribute)
(PYME.LMVis.renderers.Triangle3DRenderer attribute)
(PYME.LMVis.renderers.TriangleRenderer attribute)
(PYME.LMVis.renderers.TriangleRendererW attribute)
(PYME.recipes.measurement.IntensityAtPoints attribute)
model (PYME.recipes.machine_learning.CNNFilter attribute)
module_outputs (PYME.recipes.base.ModuleCollection attribute)
ModuleBase (class in PYME.recipes.base)
ModuleCollection (class in PYME.recipes.base)
moduleName (PYME.IO.DataSources.AlignDataSource.DataSource attribute)
(PYME.IO.DataSources.BGSDataSource.DataSource attribute)
(PYME.IO.DataSources.BioformatsDataSource.DataSource attribute)
(PYME.IO.DataSources.BufferedDataSource.DataSource attribute)
(PYME.IO.DataSources.ClusterPZFDataSource.DataSource attribute)
(PYME.IO.DataSources.CropDataSource.DataSource attribute)
(PYME.IO.DataSources.DcimgDataSource.DataSource attribute)
(PYME.IO.DataSources.FlatFieldDataSource.DataSource attribute)
(PYME.IO.DataSources.HDFDataSource.DataSource attribute)
(PYME.IO.DataSources.HTTPDataSource.DataSource attribute)
(PYME.IO.DataSources.ImageSeriesDataSource.DataSource attribute)
(PYME.IO.DataSources.MultiviewDataSource.DataSource attribute)
(PYME.IO.DataSources.RandomDataSource.DataSource attribute)
(PYME.IO.DataSources.SupertileDatasource.DataSource attribute)
(PYME.IO.DataSources.TQDataSource.DataSource attribute)
(PYME.IO.DataSources.TiffDataSource.DataSource attribute)
(PYME.IO.DataSources.UnsplitDataSource.DataSource attribute)
modules (PYME.recipes.base.ModuleCollection attribute)
ModuleSelectionDialog (class in PYME.recipes.recipeGui)
MotionCompensatingRichardsonLucy (class in PYME.Deconv.richardsonLucyMVM)
motionFlagger (class in PYME.LMVis.Extras.flagZMotionArtifacts)
mount() (in module PYME.DSView.htmlServe)
MouseEvent() (in module PYME.misc.eventSpy)
movieplot (PYME.Analysis.Tracking.trackUtils.Track attribute)
movieplot() (in module PYME.Analysis.graphing_filters)
movieplot2() (in module PYME.Analysis.graphing_filters)
msd() (in module PYME.Analysis.Tracking.msd)
msdinfo (PYME.Analysis.Tracking.trackUtils.Track attribute)
msdplot (PYME.Analysis.Tracking.trackUtils.Track attribute)
mthresholder (class in PYME.DSView.modules.multithreshold)
MultiColAnalyzer (class in PYME.LMVis.Extras.multiColourAnalysis)
multicolcheck() (in module PYME.LMVis.Extras.multiColourAnalysis)
(in module PYME.misc.shellutils)
MultifitBlobs (class in PYME.recipes.measurement)
Multiply (class in PYME.recipes.base)
multiprocessing (PYME.recipes.localisations.DBSCANClustering attribute)
multithreaded (PYME.recipes.localisations.DBSCANClustering attribute)
MultiviewMapper (class in PYME.LMVis.Extras.multiviewMapping)
MultiviewRichardsonLucy (class in PYME.Deconv.richardsonLucyMV)
MultiviewSelect (class in PYME.Acquire.ui.multiview_select)
munge_res() (in module PYME.Analysis.BleachProfile.kinModels)
mutual_information() (in module PYME.Analysis.Colocalisation.correlationCoeffs)
MyApp (class in PYME.DSView.dsviewer)
mydict (class in PYME.util.mProfile.mProfile)
(class in PYME.util.mProfile.p)
mydictn (class in PYME.util.mProfile.mProfile)
(class in PYME.util.mProfile.p)
MyFrame (class in PYME.misc.tempMonitor)
(class in PYME.ParallelTasks.fitMon)
(class in PYME.ParallelTasks.fitMonP)
myListCtrl (class in PYME.contrib.TextCtrlAutoComplete)
(class in PYME.DSView.modules.annotation)
(class in PYME.DSView.modules.svmLabel)
myLock (class in PYME.ParallelTasks.HDFTaskQueue)
MyNavigationToolbar (class in PYME.DSView.modules.graphViewPanel)
(class in PYME.DSView.modules.pupilView)
myTask (class in PYME.ParallelTasks.taskDef)
mytimer (class in PYME.ui.mytimer)
MyWeakSet (class in PYME.DSView.displayOptions)
N
n() (PYME.misc.zemax.DefaultGlass method)
(PYME.misc.zemax.Glass method)
n_frames (PYME.IO.h5File.H5File attribute)
n_histogram_bins (PYME.recipes.processing.Threshold attribute)
n_iterations (PYME.recipes.localisations.SphericalHarmonicShell attribute)
n_nearest_neighbours (PYME.recipes.pointcloud.LocalPointDensity attribute)
n_points_min (PYME.recipes.surface_fitting.DualMarchingCubes attribute)
n_processes (PYME.recipes.measurement.ChunkedTravelingSalesperson attribute)
NA (PYME.DSView.modules.psfTools.PSFTools attribute)
(PYME.DSView.modules.pupilTools.PupilTools attribute)
name (PYME.LMVis.renderers.CurrentRenderer attribute)
(PYME.LMVis.renderers.DensityFitRenderer attribute)
(PYME.LMVis.renderers.Gaussian3DRenderer attribute)
(PYME.LMVis.renderers.GaussianRenderer attribute)
(PYME.LMVis.renderers.Histogram3DRenderer attribute)
(PYME.LMVis.renderers.HistogramRenderer attribute)
(PYME.LMVis.renderers.LHoodRenderer attribute)
(PYME.LMVis.renderers.QuadTreeRenderer attribute)
(PYME.LMVis.renderers.Triangle3DRenderer attribute)
(PYME.LMVis.renderers.TriangleRenderer attribute)
(PYME.LMVis.renderers.TriangleRendererW attribute)
names (PYME.IO.image.ImageStack attribute)
nbins (PYME.recipes.measurement.BinnedHistogram attribute)
(PYME.recipes.measurement.Histogram attribute)
(PYME.recipes.measurement.ImageHistogram attribute)
(PYME.recipes.measurement.PairwiseDistanceHistogram attribute)
nbmf() (in module PYME.Analysis.BleachProfile.rollins)
nbrff() (in module PYME.Analysis.BleachProfile.rollins)
NearestNeighbourDistances (class in PYME.recipes.measurement)
neg_binom_histfitting() (in module PYME.Analysis.BleachProfile.rollins)
NestedClassMDHandler (class in PYME.IO.MetaDataHandler)
new_output_name() (PYME.recipes.base.ModuleCollection method)
newColour() (PYME.LMVis.workspaceTree.WorkWrap method)
next() (PYME.cluster.rulenodeserver.Rater method)
next_page() (PYME.contrib.lzw.PagingDecoder method)
niceVariables (PYME.LMVis.importTextDialog.ImportTextDialog attribute)
NineCollections (class in PYME.LMVis.tests.gl_test_objects)
NodeServer (class in PYME.cluster.rulenodeserver)
noise() (in module PYME.Analysis.PSFEst.psfQuality)
NoisePlane (class in PYME.LMVis.tests.gl_test_objects)
Normalize (class in PYME.recipes.base)
normalize (PYME.recipes.measurement.Histogram attribute)
(PYME.recipes.measurement.ImageHistogram attribute)
normalize() (PYME.LMVis.views.View static method)
normalize_view() (PYME.LMVis.views.View method)
normalizeFeatures() (in module PYME.Analysis.svmSegment)
NormalizeMean (class in PYME.recipes.base)
NOT_PRESENT (PYME.Acquire.ExecTools.BGInitTask attribute)
Notify() (PYME.Acquire.frameWrangler.FrameWrangler method)
notify() (PYME.LMVis.filterPane.FilterPanel method)
Notify() (PYME.ui.mytimer.mytimer method)
notimes() (in module PYME.LMVis.objectDarkMeasure)
nPix (PYME.recipes.filters.DespeckleFilter attribute)
nTrueDims (PYME.IO.DataSources.BaseDataSource.BaseDataSource attribute)
nudge() (PYME.Acquire.ui.positionUI.PositionPanel method)
num_tasks_to_request (PYME.cluster.rulenodeserver.NodeServer attribute)
numberOfJobs (PYME.recipes.localisations.DBSCANClustering attribute)
numFollowFrames (PYME.recipes.tracking.FitFusionTraces attribute)
numLeadFrames (PYME.recipes.tracking.FitFusionTraces attribute)
NumpyExporter (class in PYME.IO.dataExporter)
NumpyTileIO (class in PYME.Analysis.tile_pyramid)
numSamples (PYME.recipes.localisations.DensityMapping attribute)
numToAlpha() (in module PYME.IO.FileUtils.nameUtils)
numToSelect (PYME.recipes.tablefilters.RandomSubset attribute)
O
ob16() (in module PYME.misc.TiffImagePlugin)
ob32() (in module PYME.misc.TiffImagePlugin)
OBJECT (PYME.Acquire.stackSettings.StackSettings attribute)
ObjectIdentifier (class in PYME.localization.ofind)
(class in PYME.localization.ofind3d)
(class in PYME.localization.ofind_nofilt)
(class in PYME.localization.ofind_pri)
(class in PYME.localization.ofind_split)
(class in PYME.localization.ofind_xcorr)
objectIndices() (in module PYME.Analysis.points.EdgeDB.edges)
ObjectMeasurer (class in PYME.LMVis.Extras.objectMeasurements)
Octree (class in PYME.recipes.pointcloud)
of() (in module PYME.Analysis.optic_flow)
offline_plotting (class in PYME.Analysis.graphing_filters)
offset (PYME.recipes.base.NormalizeMean attribute)
(PYME.recipes.processing.Deconvolve attribute)
OfindPoint (class in PYME.localization.ofind)
(class in PYME.localization.ofind3d)
(class in PYME.localization.ofind_nofilt)
(class in PYME.localization.ofind_pri)
(class in PYME.localization.ofind_split)
(class in PYME.localization.ofind_xcorr)
ol16() (in module PYME.misc.TiffImagePlugin)
ol32() (in module PYME.misc.TiffImagePlugin)
oldData (PYME.IO.DataSources.BaseDataSource.BaseDataSource attribute)
oldSlice (PYME.IO.DataSources.BaseDataSource.BaseDataSource attribute)
OMETiffExporter (class in PYME.IO.dataExporter)
OMEXMLMDHandler (class in PYME.IO.MetaDataHandler)
On3DIsosurf() (PYME.DSView.modules.vis3D.visualiser method)
On3DVolume() (PYME.DSView.modules.vis3D.visualiser method)
on_adjust_snake() (PYME.DSView.modules.annotation.LabelPanel method)
on_change_lock_mode() (PYME.DSView.modules.annotation.LabelPanel method)
on_edit() (PYME.LMVis.Extras.animation.VideoPanel method)
on_moveto() (PYME.Acquire.ui.positionUI.PositionPanel method)
on_select_view() (PYME.LMVis.Extras.animation.VideoPanel method)
on_SIGHUP() (in module PYME.cluster.ruleserver)
(in module PYME.cluster.taskWorkerHTTP)
on_toggle() (PYME.Acquire.ui.lasersliders.LaserSliders method)
(PYME.Acquire.ui.multiview_select.MultiviewSelect method)
on_trait_change() (in module PYME.misc.mock_traits)
OnAddAction() (PYME.Acquire.ui.actionUI.ActionPanel method)
OnAddChan() (PYME.DSView.modules.composite.CompositeDialog method)
OnAddModule() (PYME.recipes.recipeGui.RecipeView method)
OnAddMove() (PYME.Acquire.ui.actionUI.ActionPanel method)
OnAddSequence() (PYME.Acquire.ui.actionUI.ActionPanel method)
OnAddSlide() (PYME.Acquire.sampleInformation.SampleInfoDialog method)
OnAddVSSetting() (PYME.Acquire.ui.voxelSizeDialog.VoxelSizeDialog method)
OnAlignChannels() (PYME.DSView.modules.composite.compositor method)
OnApply() (PYME.DSView.modules.composite.ShiftPanel method)
(PYME.DSView.modules.segmentation.SegmentationPanel method)
OnApplyShiftmap() (PYME.DSView.modules.composite.compositor method)
OnApplyText() (PYME.recipes.recipeGui.RecipeView method)
OnApplyThreshold() (PYME.DSView.modules.filtering.filterer method)
OnAqStart() (PYME.Acquire.zScanner.wavetableZScanner method)
(PYME.Acquire.zScanner.zScanner method)
OnAqStop() (PYME.Acquire.zScanner.wavetableZScanner method)
(PYME.Acquire.zScanner.zScanner method)
OnAverageFramesByStep() (PYME.DSView.modules.filtering.filterer method)
OnBake() (PYME.recipes.recipeGui.BatchFrame method)
OnBAnalyse() (PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
OnBeginEdit() (PYME.ui.MetadataTree.MetadataPanel method)
OnBeginLabelEdit() (PYME.DSView.modules.annotation.myListCtrl method)
(PYME.DSView.modules.svmLabel.myListCtrl method)
OnBEndHereButton() (PYME.Acquire.ui.seqdialog.seqPanel method)
OnBLive() (PYME.Acquire.ui.seqdialog.seqPanel method)
OnBMid_numRadiobutton() (PYME.Acquire.ui.seqdialog.seqPanel method)
OnBOptimise() (PYME.DSView.displaySettingsPanel.dispSettingsPanel method)
(PYME.DSView.displaySettingsPanel.dispSettingsPanel2 method)
OnBRemove() (PYME.ParallelTasks.fitMonP.MyFrame method)
OnBSetAqProtocolButton() (PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
OnBSetSpoolDirButton() (PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
OnBSingle() (PYME.Acquire.ui.seqdialog.seqPanel method)
OnBSt_endRadiobutton() (PYME.Acquire.ui.seqdialog.seqPanel method)
OnBStartHereButton() (PYME.Acquire.ui.seqdialog.seqPanel method)
OnBStartSpoolButton() (PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
OnBStartStackButton() (PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
OnBStopSpoolingButton() (PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
onBtChangeChoice() (PYME.contrib.TextCtrlAutoComplete.test method)
onBtDynamicChoices() (PYME.contrib.TextCtrlAutoComplete.test method)
onBtMultiChoice() (PYME.contrib.TextCtrlAutoComplete.test method)
onBtStartChoices() (PYME.contrib.TextCtrlAutoComplete.test method)
OnCalcCRB() (PYME.DSView.modules.psfTools.PSFTools method)
OnCalcCRB3DvsBG() (PYME.DSView.modules.psfTools.PSFTools method)
OnCalcDecays() (PYME.LMVis.Extras.photophysics.DecayAnalyser method)
OnCalcHarmonicRepresentation() (PYME.LMVis.Extras.spherical_harmonics.ShellManager method)
OnCalcMSDs() (PYME.LMVis.Extras.particleTracking.ParticleTracker method)
OnCalcShift() (PYME.DSView.modules.psfExtraction.PsfExtractor method)
OnCalcShiftmap() (PYME.DSView.modules.blobFinding.blobFinder method)
OnCalculate() (PYME.DSView.modules.blobMeasure.Measurements method)
(PYME.DSView.modules.deconvolution.WienerDeconvolver method)
OnCalcWidths() (PYME.LMVis.Extras.particleTracking.ParticleTracker method)
OnCalibrateAstigmatism() (PYME.DSView.modules.psfTools.PSFTools method)
OnCalibrateMultiview() (PYME.DSView.modules.psfExtraction.PsfExtractor method)
OnCalibrateShifts() (PYME.LMVis.Extras.multiviewMapping.MultiviewMapper method)
OnCameraFrame() (PYME.Acquire.zScanner.zScanner method)
OnCancel() (PYME.Deconv.deconvDialogs.DeconvProgressDialog method)
(PYME.Deconv.deconvDialogs.DeconvProgressPanel method)
OnCbOn() (PYME.Acquire.ui.lasersliders.LaserSliders method)
(PYME.Acquire.ui.lasersliders.LaserToggles method)
OnCCamera() (PYME.Acquire.ui.selectCameraPanel.CameraChooserPanel method)
OnChanDown() (PYME.DSView.modules.composite.CompositeDialog method)
OnChange() (PYME.DSView.displayOptions.DisplayOpts method)
OnChange3D() (PYME.LMVis.displayPane.DisplayPane method)
(PYME.LMVis.displayPane.DisplayPaneHorizontal method)
(PYME.LMVis.displayPane.DisplayPaneLight method)
OnChangeBackground() (PYME.DSView.modules.psfTools.CRBViewPanel method)
OnChangeLineWidth() (PYME.DSView.modules.annotation.LabelPanel method)
(PYME.DSView.modules.svmLabel.LabelPanel method)
OnChangeMethod() (PYME.DSView.modules.blobFinding.blobFinder method)
OnChangePDye() (PYME.LMVis.colourPanel.colourPanel method)
OnChangePOther() (PYME.LMVis.colourPanel.colourPanel method)
OnChangeScaleBar() (PYME.LMVis.displayPane.DisplayPane method)
(PYME.LMVis.displayPane.DisplayPaneHorizontal method)
(PYME.LMVis.displayPane.DisplayPaneLight method)
OnChangeStructure() (PYME.DSView.modules.annotation.LabelPanel method)
(PYME.DSView.modules.svmLabel.LabelPanel method)
OnChanUp() (PYME.DSView.modules.composite.CompositeDialog method)
OnChar() (PYME.contrib.listctrlMixins.TextEditMixin method)
(PYME.ui.MetadataTree.TextEditMixin method)
OnCheckAstigmatismCalibration() (PYME.LMVis.Extras.multiviewMapping.MultiviewMapper method)
OnCheckItem() (PYME.contrib.listctrlMixins.CheckListCtrlMixin method)
OnCheckSpacing() (PYME.Acquire.Utils.sarcSpacing.SarcomereChecker method)
OnChooseVS() (PYME.Acquire.ui.voxelSizeDialog.VoxelSizeDialog method)
OnChPiezoChoice() (PYME.Acquire.ui.seqdialog.seqPanel method)
OnClear() (PYME.Acquire.positionTracker.TrackerPanel method)
OnClearTags() (PYME.DSView.modules.psfExtraction.PsfExtractor method)
onClickToggleDown() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
onClickToggleUp() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
OnCLimChange() (PYME.LMVis.displayPane.DisplayPane method)
OnCLimChanged() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
OnCLimHistChange() (PYME.LMVis.displayPane.DisplayPane method)
OnClose() (PYME.LMVis.Extras.showShortcuts.ShowShortcuts method)
onCloseFloatingPage() (PYME.contrib.auiFloatBook.AuiNotebookWithFloatingPages method)
OnCloseWindow() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
(PYME.DSView.dsviewer.DSViewFrame method)
OnClumpDBSCAN() (PYME.LMVis.Extras.clusterAnalysis.ClusterAnalyser method)
OnClustersInTime() (PYME.LMVis.Extras.clusterAnalysis.ClusterAnalyser method)
OnCMapChange() (PYME.LMVis.displayPane.DisplayPane method)
OnCMapChanged() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
OnCoalesce() (PYME.LMVis.Extras.particleTracking.ParticleTracker method)
OnColNameChange() (PYME.LMVis.importTextDialog.ImportTextDialog method)
OnColoc() (PYME.DSView.modules.coloc.colocaliser method)
(PYME.DSView.modules.fourierRingCorrelation.RingCorrelator method)
OnColocBasic() (PYME.DSView.modules.coloc.colocaliser method)
OnColourChanged() (PYME.LMVis.displayPane.DisplayPaneHorizontal method)
OnColourFilterChange() (PYME.LMVis.colourFilterGUI.ColourFilterPane method)
onCombobox() (PYME.Acquire.ui.intsliders.IntegrationSliders method)
(PYME.Acquire.ui.intsliders.IntegrationSliders_ method)
OnComplexChanged() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
onControlChanged() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
OnCorrelate() (PYME.DSView.modules.composite.ShiftPanel method)
OnCreateMask() (PYME.DSView.modules.manualSegment.manualSegment method)
(PYME.DSView.modules.svmLabel.manualLabel method)
OnCrop() (PYME.DSView.dsviewer.DSViewFrame method)
(PYME.DSView.modules.cropping.cropper method)
OnDarkT() (PYME.LMVis.Extras.QPobjectSegment.QPObjectSegmenter method)
OnDeconEnd() (PYME.DSView.modules.deconvolution.deconvolver method)
OnDeconTimer() (PYME.DSView.modules.deconvolution.deconvolver method)
(PYME.DSView.modules.deconvolution.WienerDeconvolver method)
OnDeconvBead() (PYME.DSView.modules.deconvolution.deconvolver method)
OnDeconvICTM() (PYME.DSView.modules.deconvolution.deconvolver method)
OnDeconvMovie() (PYME.DSView.modules.deconvolution.deconvolver method)
OnDeconvWiener() (PYME.DSView.modules.deconvolution.deconvolver method)
OnDiagSplit() (PYME.DSView.modules.cropping.cropper method)
OnDoChange() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
OnDone() (PYME.DSView.modules.segmentation.SegmentationPanel method)
onDragMotion() (PYME.contrib.auiFloatBook.AuiNotebookWithFloatingPages method)
OnDropFiles() (PYME.DSView.dsviewer.dt method)
(PYME.recipes.recipeGui.dt method)
onEndDrag() (PYME.contrib.auiFloatBook.AuiNotebookWithFloatingPages method)
OnEndEdit() (PYME.ui.MetadataTree.MetadataPanel method)
onEnteredText() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
OnEraseBackground() (PYME.ui.autoFoldPanel.SizeReportCtrl method)
(PYME.ui.manualFoldPanel.SizeReportCtrl method)
OnErrScrolledDialog() (PYME.ParallelTasks.fitMonP.MyFrame method)
ones() (in module PYME.util.shmarray.shmarray)
OnExport() (PYME.DSView.dsviewer.DSViewFrame method)
OnExportXls() (PYME.DSView.modules.blobMeasure.Measurements method)
onExpReady() (PYME.Acquire.frameWrangler.FrameWrangler method)
OnExtract() (PYME.DSView.modules.prebleachExtraction.PrebleachExtractor method)
(PYME.DSView.modules.psfExtraction.PsfExtractor method)
OnExtractMultiviewPSF() (PYME.DSView.modules.psfExtraction.PsfExtractor method)
OnExtractPSF() (PYME.DSView.modules.psfExtraction.PsfExtractor method)
OnExtractPupil() (PYME.DSView.modules.psfTools.PSFTools method)
OnExtractSplitPSF() (PYME.DSView.modules.psfExtraction.PsfExtractor method)
OnFeaturesChanged() (PYME.recipes.tracking.TrackFeatures method)
OnFileExit() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
OnFileOpenStack() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
OnFilterAdd() (PYME.DSView.modules.measure.filterPan.FilterPane method)
(PYME.LMVis.filterPane.FilterPanel method)
OnFilterChange() (PYME.Acquire.sampleInformation.SampleInfoDialog method)
OnFilterClipToSelection() (PYME.DSView.modules.measure.filterPan.FilterPane method)
(PYME.LMVis.filterPane.FilterPane method)
OnFilterDelete() (PYME.DSView.modules.measure.filterPan.FilterPane method)
(PYME.LMVis.filterPane.FilterPanel method)
OnFilterEdit() (PYME.DSView.modules.measure.filterPan.FilterPane method)
(PYME.LMVis.filterPane.FilterPanel method)
OnFilterItemDeselected() (PYME.DSView.modules.measure.filterPan.FilterPane method)
(PYME.LMVis.filterPane.FilterPanel method)
OnFilterItemSelected() (PYME.DSView.modules.measure.filterPan.FilterPane method)
(PYME.LMVis.filterPane.FilterPanel method)
OnFilterListRightClick() (PYME.DSView.modules.measure.filterPan.FilterPane method)
(PYME.LMVis.filterPane.FilterPanel method)
OnFindClumps() (PYME.LMVis.Extras.multiviewMapping.MultiviewMapper method)
(PYME.LMVis.Extras.particleTracking.ParticleTracker method)
OnFindMixedClusters() (PYME.LMVis.Extras.clusterAnalysis.ClusterAnalyser method)
OnFindObjects() (PYME.DSView.modules.blobFinding.blobFinder method)
OnFinish() (PYME.Acquire.protocol.Protocol method)
(PYME.Acquire.protocol.TaskListProtocol method)
(PYME.Acquire.protocol.ZStackTaskListProtocol method)
OnFitModuleChanged() (PYME.Acquire.ui.AnalysisSettingsUI.AnalysisSettingsPanel method)
OnFitObjects() (PYME.DSView.modules.blobFinding.blobFinder method)
OnFitQuadraticPatches() (PYME.LMVis.Extras.surface_fitting.SurfaceFitter method)
OnFold() (PYME.LMVis.Extras.multiviewMapping.MultiviewMapper method)
(PYME.ui.autoFoldPanel.collapsingPane method)
(PYME.ui.manualFoldPanel.collapsingPane method)
OnFrame() (PYME.Acquire.HDFSpooler.Spooler method)
(PYME.Acquire.HTTPHDFSpooler.Spooler method)
(PYME.Acquire.HTTPSpooler.Spooler method)
(PYME.Acquire.QueueSpooler.Spooler method)
(PYME.Acquire.Spooler.Spooler method)
(PYME.Acquire.protocol.Protocol method)
(PYME.Acquire.protocol.TaskListProtocol method)
(PYME.Acquire.protocol.ZStackTaskListProtocol method)
(PYME.DSView.modules.playback.PlayPanel method)
OnFrameGroup() (PYME.Acquire.autofocus.AutoFocus method)
(PYME.Acquire.Utils.vibrationAnalysis.VibrAnal method)
OnFRC() (PYME.DSView.modules.coloc.colocaliser method)
OnGaussianFilter() (PYME.DSView.modules.filtering.filterer method)
(PYME.DSView.modules.sparkprepare.filterer method)
OnGaussianFit() (PYME.DSView.modules.profileFitting.fitter method)
OnGenShiftmap() (PYME.LMVis.Extras.shiftmapGenerator.ShiftmapGenerator method)
OnGenShiftmapQuad() (PYME.LMVis.Extras.shiftmapGenerator.ShiftmapGenerator method)
OnGenShiftmapQuadz() (PYME.LMVis.Extras.shiftmapGenerator.ShiftmapGenerator method)
OnGetChildrenCount() (PYME.LMVis.workspaceTree.WorkspaceTree method)
OnGetIDs() (PYME.LMVis.Extras.objectMeasurements.ObjectMeasurer method)
(PYME.LMVis.Extras.QPobjectSegment.QPObjectSegmenter method)
OnGetItemImage() (PYME.LMVis.workspaceTree.WorkspaceTree method)
OnGetItemText() (PYME.Acquire.sampleInformation.VirtList method)
(PYME.Acquire.ui.actionUI.ActionList method)
(PYME.DSView.modules.composite.ImageList method)
(PYME.LMVis.workspaceTree.WorkspaceTree method)
OnGetMatches() (PYME.recipes.recipeGui.BatchFrame method)
OnGetMatches2() (PYME.recipes.recipeGui.BatchFrame method)
OnGo() (PYME.Acquire.ui.tile_panel.CircularTilePanel method)
(PYME.Acquire.ui.tile_panel.TilePanel method)
OnGoto() (PYME.DSView.modules.playback.PlayPanel method)
OnHideObject() (PYME.DSView.modules.blobMeasure.Measurements method)
OnIDTransient() (PYME.LMVis.Extras.flagZMotionArtifacts.motionFlagger method)
OnInit() (PYME.Acquire.PYMEAcquire.BoaApp method)
(PYME.DSView.dsviewer.MyApp method)
(PYME.recipes.bakeshop.BakeshopApp method)
OnIsodataThresh() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
OnItemSelected() (PYME.contrib.listctrlMixins.TextEditMixin method)
(PYME.ui.MetadataTree.TextEditMixin method)
OnJoystickEnable() (PYME.Acquire.ui.positionUI.PositionPanel method)
(PYME.Acquire.ui.positionUI.PositionSliders method)
onKeyDown() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
OnKeyDown() (PYME.misc.editgrid.EditGrid method)
OnKeyPress() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.DSView.modules.manualSegment.manualSegment method)
(PYME.DSView.modules.svmLabel.manualLabel method)
(PYME.LMVis.imageView.ImageViewPanel method)
(PYME.LMVis.imageView2.ImageViewPanel method)
(PYME.ui.histLimits.HistLimitPanel method)
OnLabel() (PYME.DSView.modules.filtering.filterer method)
OnLabelActivate() (PYME.DSView.modules.annotation.myListCtrl method)
(PYME.DSView.modules.svmLabel.myListCtrl method)
OnLabelSizeThreshold() (PYME.DSView.modules.filtering.filterer method)
OnLabelWatershed() (PYME.DSView.modules.filtering.filterer method)
OnLCSMDoPopup() (PYME.contrib.listctrlMixins.ListCtrlSelectionManagerMix method)
OnLCSMRightDown() (PYME.contrib.listctrlMixins.ListCtrlSelectionManagerMix method)
OnLeftClick() (PYME.ui.autoFoldPanel.CaptionBar method)
(PYME.ui.manualFoldPanel.CaptionBar method)
OnLeftDown() (PYME.contrib.listctrlMixins.TextEditMixin method)
(PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.LMVis.imageView.ImageViewPanel method)
(PYME.LMVis.imageView2.ImageViewPanel method)
(PYME.ui.MetadataTree.TextEditMixin method)
(PYME.ui.histLimits.HistLimitPanel method)
OnLeftUp() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.LMVis.imageView.ImageViewPanel method)
(PYME.LMVis.imageView2.ImageViewPanel method)
(PYME.ui.histLimits.HistLimitPanel method)
OnLineThickness() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
onListClick() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
onListColClick() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
onListDClick() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
onListItemSelected() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
OnLoadClassifier() (PYME.DSView.modules.svmLabel.manualLabel method)
OnLoadRecipe() (PYME.recipes.recipeGui.RecipeManager method)
OnLogScrolledDialog() (PYME.ParallelTasks.fitMonP.MyFrame method)
OnLUTDrawCB() (PYME.LMVis.displayPane.DisplayPane method)
(PYME.LMVis.displayPane.DisplayPaneHorizontal method)
(PYME.LMVis.displayPane.DisplayPaneLight method)
OnMakeComposites() (PYME.DSView.modules.composite.compositor method)
OnMapAstigmaticZ() (PYME.LMVis.Extras.multiviewMapping.MultiviewMapper method)
OnMappingChange() (PYME.DSView.displaySettingsPanel.dispSettingsPanel method)
(PYME.DSView.displaySettingsPanel.dispSettingsPanel2 method)
OnMAquireOnePic() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
OnMAquireStack() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
OnMaxProject() (PYME.DSView.modules.filtering.filterer method)
OnMCA() (PYME.LMVis.Extras.multiColourAnalysis.MultiColAnalyzer method)
OnMCamBin() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
OnMCamRoi() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
OnMCamSetPixelSize() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
OnMDChanged() (PYME.Acquire.ui.AnalysisSettingsUI.AnalysisDetailsPanel method)
OnMDisplayClearSel() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
OnMeanProject() (PYME.DSView.modules.filtering.filterer method)
OnMeasure() (PYME.LMVis.Extras.objectMeasurements.ObjectMeasurer method)
(PYME.LMVis.Extras.QPobjectSegment.QPObjectSegmenter method)
OnMeasureClusters() (PYME.LMVis.Extras.clusterAnalysis.ClusterAnalyser method)
OnMergeClumps() (PYME.LMVis.Extras.multiviewMapping.MultiviewMapper method)
OnMethodChanged() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
OnMiddleDClick() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
OnMiddleDown() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.LMVis.imageView.ImageViewPanel method)
(PYME.LMVis.imageView2.ImageViewPanel method)
OnMiddleUp() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.LMVis.imageView.ImageViewPanel method)
(PYME.LMVis.imageView2.ImageViewPanel method)
OnMotion() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.LMVis.imageView.ImageViewPanel method)
(PYME.LMVis.imageView2.ImageViewPanel method)
OnMouseEnterLeave() (PYME.ui.autoFoldPanel.CaptionBar method)
OnMouseEnterPane() (PYME.ui.autoFoldPanel.foldPanel method)
OnMouseLeave() (PYME.ui.autoFoldPanel.foldPanel method)
OnMouseLeavePane() (PYME.ui.autoFoldPanel.foldPanel method)
OnMouseMove() (PYME.ui.histLimits.HistLimitPanel method)
OnMouseScrollEvent() (PYME.ui.histLimits.HistLimitPanel method)
OnMultiplyMask() (PYME.DSView.modules.manualSegment.manualSegment method)
OnNearestNeighbor() (PYME.LMVis.Extras.clusterAnalysis.ClusterAnalyser method)
OnNewRecipe() (PYME.recipes.recipeGui.RecipeView method)
OnOpen() (PYME.DSView.dsviewer.DSViewFrame method)
OnOptimise() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
OnOutScrolledDialog() (PYME.ParallelTasks.fitMonP.MyFrame method)
OnPaint() (PYME.Acquire.ui.splashScreen.SplashPanel method)
(PYME.DSView.eventLogViewer.eventLogPanel method)
(PYME.DSView.eventLogViewer.eventLogTPanel method)
(PYME.DSView.scrolledImagePanel.ImagePanel method)
(PYME.DSView.splashScreen.SplashPanel method)
(PYME.LMVis.imageView.ImageViewPanel method)
(PYME.LMVis.imageView2.ImageViewPanel method)
(PYME.recipes.vertical_recipe_display.RecipeDisplayPanel method)
(PYME.ui.autoFoldPanel.CaptionBar method)
(PYME.ui.autoFoldPanel.SizeReportCtrl method)
(PYME.ui.autoFoldPanel.foldButton method)
(PYME.ui.fastGraph.FastGraphPanel method)
(PYME.ui.histLimits.HistLimitPanel method)
(PYME.ui.manualFoldPanel.CaptionBar method)
(PYME.ui.manualFoldPanel.SizeReportCtrl method)
(PYME.ui.manualFoldPanel.foldButton method)
OnPairwiseDistanceHistogram() (PYME.LMVis.Extras.clusterAnalysis.ClusterAnalyser method)
OnParamChange() (PYME.recipes.tracking.TrackFeatures method)
OnPaste() (PYME.misc.editgrid.EditGrid method)
OnPauseActions() (PYME.Acquire.ui.actionUI.ActionPanel method)
OnPercentileCLim() (PYME.LMVis.displayPane.DisplayPane method)
OnPerFrame() (PYME.LMVis.Extras.perFrameVariable.PerFrameVar method)
OnPick() (PYME.recipes.recipeGui.RecipeView method)
OnPlay() (PYME.DSView.modules.playback.PlayPanel method)
OnPlayPosChanged() (PYME.DSView.modules.playback.PlayPanel method)
OnPlaySpeedChanged() (PYME.DSView.modules.playback.PlayPanel method)
OnPlotAxialProfile() (PYME.DSView.modules.profilePlotting.profiler method)
OnPlotProfile() (PYME.DSView.modules.multithreshold.mthresholder method)
(PYME.DSView.modules.profilePlotting.profiler method)
(PYME.DSView.modules.squiggleTools.squiggle method)
OnPlotTemperature() (PYME.LMVis.Extras.temperaturePlot.TempPlotter method)
OnPointwiseColoc() (PYME.LMVis.Extras.pointwiseColoc.PointwiseColocaliser method)
OnPSFFileChanged() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
(PYME.DSView.modules.deconvolution.WienerDeconvolver method)
OnPSFFromPupil() (PYME.DSView.modules.pupilTools.PupilTools method)
OnPSFFromZernikeModes() (PYME.DSView.modules.pupilTools.PupilTools method)
OnPSFNotebookPageChanged() (PYME.Deconv.deconvDialogs.DeconvSettingsDialog method)
OnPSFROI() (PYME.DSView.modules.psfExtraction.PsfExtractor method)
OnRawDecay() (PYME.DSView.modules.profileFitting.fitter method)
OnRawDecaySimp() (PYME.DSView.modules.profileFitting.fitter method)
OnRefrTimer() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
OnRemoveChan() (PYME.DSView.modules.composite.CompositeDialog method)
OnResampleZStack() (PYME.DSView.modules.filtering.filterer method)
OnResize() (PYME.ui.manualFoldPanel.foldPanel method)
OnRetrieveIntensitySteps() (PYME.LMVis.Extras.photophysics.DecayAnalyser method)
OnRightDown() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.ui.MetadataTree.MetadataPanel method)
OnRightUp() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.LMVis.workspaceTree.WorkspaceTree method)
(PYME.ui.MetadataTree.MetadataPanel method)
(PYME.ui.histLimits.HistLimitPanel method)
OnRingTest() (PYME.LMVis.Extras.clusterAnalysis.ClusterAnalyser method)
OnROIsFromFile() (PYME.Acquire.ui.actionUI.ActionPanel method)
OnROIsFromTileviewer() (PYME.Acquire.ui.actionUI.ActionPanel method)
OnSave() (PYME.DSView.dsviewer.DSViewFrame method)
OnSaveClassifier() (PYME.DSView.modules.svmLabel.manualLabel method)
OnSaveObjects() (PYME.DSView.modules.blobMeasure.Measurements method)
OnSaveRecipe() (PYME.recipes.recipeGui.RecipeManager method)
OnSaveToCluster() (PYME.DSView.dsviewer.DSViewFrame method)
OnScaleChanged() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
(PYME.DSView.displaySettingsPanel.dispSettingsPanel method)
(PYME.DSView.displaySettingsPanel.dispSettingsPanel2 method)
OnScrollX() (PYME.DSView.scrolledImagePanel.ScrolledImagePanel method)
OnScrollY() (PYME.DSView.scrolledImagePanel.ScrolledImagePanel method)
OnSeekStart() (PYME.DSView.modules.playback.PlayPanel method)
OnSegmentAnneal() (PYME.DSView.modules.segmentation.segmenter method)
OnSelect() (PYME.recipes.recipeGui.ModuleSelectionDialog method)
OnSelectCell() (PYME.DSView.modules.psfTools.PSFQualityPanel method)
OnSelectCrosshairs() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
OnSelectLine() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
OnSelectRectangle() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
OnSelectSlide() (PYME.Acquire.sampleInformation.SampleInfoDialog method)
OnSelectSquiggle() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
OnServerErrScrolledDialog() (PYME.ParallelTasks.fitMonP.MyFrame method)
OnServerOutScrolledDialog() (PYME.ParallelTasks.fitMonP.MyFrame method)
OnSetLabels() (PYME.DSView.modules.filtering.filterer method)
OnSetPosition() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
OnSetShiftField() (PYME.DSView.modules.splitter.Unmixer method)
OnSetShiftmap() (PYME.DSView.modules.composite.CompositeDialog method)
OnSetSlide() (PYME.Acquire.sampleInformation.slidePanel method)
OnSetSubtractionProfile() (PYME.Acquire.ui.focus_lock_gui.FocusLockPanel method)
OnShiftCorr() (PYME.DSView.OverlaysPanel.OverlayPanel method)
OnShiftCorrectFolded() (PYME.LMVis.Extras.multiviewMapping.MultiviewMapper method)
OnShow() (PYME.LMVis.colourPanel.colourPanel method)
OnShowAdjPoints() (PYME.DSView.OverlaysPanel.OverlayPanel method)
OnShowChanged() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
OnShowPoints() (PYME.DSView.OverlaysPanel.OverlayPanel method)
OnShowThreshold() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
OnSignalFracThresh() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
OnSingleEnd() (PYME.Acquire.ui.seqdialog.seqPanel method)
OnSize() (PYME.DSView.eventLogViewer.eventLogPanel method)
(PYME.DSView.eventLogViewer.eventLogTPanel method)
(PYME.DSView.modules.playback.PlayPanel method)
(PYME.DSView.scrolledImagePanel.ScrolledImagePanel method)
(PYME.LMVis.imageView.ImageViewPanel method)
(PYME.LMVis.imageView2.ImageViewPanel method)
(PYME.LMVis.pipelineView.PipelinePanel method)
(PYME.ui.AUIFrame.AUIFrame method)
(PYME.ui.MetadataTree.MetadataPanel method)
(PYME.ui.autoFoldPanel.CaptionBar method)
(PYME.ui.autoFoldPanel.SizeReportCtrl method)
(PYME.ui.fastGraph.FastGraphPanel method)
(PYME.ui.histLimits.HistLimitPanel method)
(PYME.ui.manualFoldPanel.CaptionBar method)
(PYME.ui.manualFoldPanel.SizeReportCtrl method)
(PYME.ui.manualFoldPanel.foldingPane method)
(PYME.ui.recArrayView.recArrayPanel method)
OnSliceChanged() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
onSlide() (PYME.Acquire.ui.intsliders.IntegrationSliders method)
(PYME.Acquire.ui.intsliders.IntegrationSliders_ method)
(PYME.Acquire.ui.lasersliders.LaserSliders method)
(PYME.Acquire.ui.lasersliders.LaserSliders_ method)
(PYME.Acquire.ui.positionUI.PositionPanel method)
(PYME.Acquire.ui.positionUI.PositionSliders method)
OnSortOrderChanged() (PYME.contrib.listctrlMixins.ColumnSorterMixin method)
OnSpecAdd() (PYME.LMVis.colourPanel.colourPanel method)
OnSpecChange() (PYME.LMVis.colourPanel.colourPanel method)
OnSpecDelete() (PYME.LMVis.colourPanel.colourPanel method)
OnSpecGuess() (PYME.LMVis.colourPanel.colourPanel method)
OnSpecListRightClick() (PYME.LMVis.colourPanel.colourPanel method)
OnSplitChannels() (PYME.DSView.modules.composite.compositor method)
OnSpoolingStarted() (PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
OnSpoolingStopped() (PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
OnSpoolMethodChanged() (PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
OnStop() (PYME.Acquire.ui.tile_panel.TilePanel method)
OnSubtractBackground() (PYME.DSView.modules.psfTools.PSFTools method)
OnSVMSegment() (PYME.DSView.modules.svmLabel.manualLabel method)
OnSVMTrain() (PYME.DSView.modules.svmLabel.manualLabel method)
OnSynchronise() (PYME.DSView.modules.synchronise.syncer method)
OnTagEdge() (PYME.Acquire.positionTracker.TrackerPanel method)
OnTagPoints() (PYME.DSView.modules.psfExtraction.PsfExtractor method)
OnTagPSF() (PYME.DSView.modules.psfExtraction.PsfExtractor method)
onTarget() (PYME.Acquire.Utils.pointScanner.PointScanner method)
(PYME.Acquire.Utils.pointScanner.PointScanner3D method)
OnTcSpoolFileText() (PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
OnTEndPosKillFocus() (PYME.Acquire.ui.seqdialog.seqPanel method)
OnTick() (PYME.Acquire.Utils.fastTiler.fastTiler method)
OnTile() (PYME.DSView.modules.tiling.tiler method)
OnTilePyramid() (PYME.DSView.modules.tiling.tiler method)
OnTimedSpecies() (PYME.LMVis.Extras.sequentialSpecies.TimedSpecies method)
onTimer() (PYME.misc.tempMonitor.MyFrame method)
(PYME.ParallelTasks.fitMon.MyFrame method)
(PYME.ParallelTasks.fitMonP.MyFrame method)
OnTNumSlicesKillFocus() (PYME.Acquire.ui.seqdialog.seqPanel method)
OnToggleLock() (PYME.Acquire.ui.focus_lock_gui.FocusLockPanel method)
OnToggleModule() (PYME.DSView.dsviewer.DSViewFrame method)
OnToggleScan() (PYME.Acquire.ui.scanner_panel.ScannerPanel method)
OnToggleZStepping() (PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
OnTrackMolecules() (PYME.LMVis.Extras.particleTracking.ParticleTracker method)
OnTStepSizeKillFocus() (PYME.Acquire.ui.seqdialog.seqPanel method)
OnTStPosKillFocus() (PYME.Acquire.ui.seqdialog.seqPanel method)
OnUnmix() (PYME.DSView.modules.splitter.Unmixer method)
(PYME.DSView.modules.unmixing.Unmixer method)
OnUnmixMax() (PYME.DSView.modules.splitter.Unmixer method)
OnUpdateSetpoint() (PYME.Acquire.ui.focus_lock_gui.FocusLockPanel method)
OnView() (PYME.DSView.modules.blobMeasure.Measurements method)
OnViewFront() (PYME.LMVis.displayPane.DisplayPaneHorizontal method)
OnViewRight() (PYME.LMVis.displayPane.DisplayPaneHorizontal method)
OnViewTop() (PYME.LMVis.displayPane.DisplayPaneHorizontal method)
OnWheel() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.DSView.eventLogViewer.eventLogPanel method)
(PYME.DSView.eventLogViewer.eventLogTPanel method)
(PYME.LMVis.imageView.ImageViewPanel method)
(PYME.LMVis.imageView2.ImageViewPanel method)
OnWorkerFileDialog() (PYME.ParallelTasks.fitMonP.MyFrame method)
OnZBinChange() (PYME.LMVis.genImageDialog.GenImageDialog method)
OnZero() (PYME.DSView.modules.composite.ShiftPanel method)
OnZPlotProfile() (PYME.DSView.modules.profilePlotting.profiler method)
(PYME.DSView.modules.squiggleTools.squiggle method)
OnZProjChanged() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
open_surface() (in module PYME.LMVis.Extras.extra_layers)
openDB() (in module PYME.IO.FileUtils.thumbnailDatabase)
OpenEditor() (PYME.contrib.listctrlMixins.TextEditMixin method)
(PYME.ui.MetadataTree.TextEditMixin method)
openFile() (in module PYME.IO.unifiedIO)
openH5() (in module PYME.IO.h5File)
openH5R() (in module PYME.IO.h5rFile)
OpticalFlow (class in PYME.recipes.processing)
Optim() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
Optimise() (PYME.DSView.displayOptions.DisplayOpts method)
OptionsPanel (class in PYME.DSView.DisplayOptionsPanel)
orientationChoices (PYME.DSView.DisplayOptionsPanel.OptionsPanel attribute)
origin (PYME.DSView.modules.composite.CompositeDialog attribute)
(PYME.IO.image.ImageStack attribute)
OSXActivateKludge() (in module PYME.DSView.dsviewer)
otsu() (in module PYME.Analysis.thresholding)
Output (class in PYME.recipes.traits)
output (PYME.recipes.localisations.ProcessColour attribute)
(PYME.recipes.localisations.TimeBlocks attribute)
(PYME.recipes.measurement.ChunkedTravelingSalesperson attribute)
(PYME.recipes.measurement.IdentifyOverlappingROIs attribute)
(PYME.recipes.measurement.TravelingSalesperson attribute)
(PYME.recipes.pointcloud.DelaunayCircumcentres attribute)
(PYME.recipes.pointcloud.DelaunayTesselation attribute)
(PYME.recipes.pointcloud.LocalPointDensity attribute)
(PYME.recipes.processing.AverageFramesByZStep attribute)
(PYME.recipes.processing.ResampleZ attribute)
(PYME.recipes.surface_fitting.DualMarchingCubes attribute)
(PYME.recipes.surface_fitting.MarchingTetrahedra attribute)
(PYME.recipes.tablefilters.RandomSubset attribute)
output_fits_filtered (PYME.recipes.surface_fitting.FitSurfaceWithPatches attribute)
output_fits_raw (PYME.recipes.surface_fitting.FitSurfaceWithPatches attribute)
output_name (PYME.recipes.localisations.SphericalHarmonicShell attribute)
(PYME.recipes.measurement.DetectPoints2D attribute)
(PYME.recipes.multiview.CalibrateShifts attribute)
(PYME.recipes.multiview.FindClumps attribute)
(PYME.recipes.multiview.Fold attribute)
(PYME.recipes.multiview.MapAstigZ attribute)
(PYME.recipes.multiview.MergeClumps attribute)
(PYME.recipes.multiview.ShiftCorrect attribute)
(PYME.recipes.processing.BackgroundSubtractionMovingAverage attribute)
(PYME.recipes.processing.StatisticsByFrame attribute)
output_octree (PYME.recipes.pointcloud.Octree attribute)
output_surface_reconstruction (PYME.recipes.surface_fitting.FitSurfaceWithPatches attribute)
outputClumps (PYME.recipes.tracking.FindClumps attribute)
outputFiducials (PYME.recipes.localisations.FiducialCorrection attribute)
outputImage (PYME.recipes.localisations.DensityMapping attribute)
outputLocalizations (PYME.recipes.localisations.Pipelineify attribute)
OutputModule (class in PYME.recipes.base)
outputName (PYME.recipes.base.ArithmaticFilter attribute)
(PYME.recipes.base.ExtractChannel attribute)
(PYME.recipes.base.Filter attribute)
(PYME.recipes.base.JoinChannels attribute)
(PYME.recipes.fudges.EstimateFrameZFromStepMetadata attribute)
(PYME.recipes.localisations.AddShellMappedCoordinates attribute)
(PYME.recipes.localisations.AutocorrelationDriftCorrection attribute)
(PYME.recipes.localisations.ClusterCountVsImagingTime attribute)
(PYME.recipes.localisations.DBSCANClustering attribute)
(PYME.recipes.localisations.ExtractTableChannel attribute)
(PYME.recipes.localisations.FiducialCorrection attribute)
(PYME.recipes.localisations.IDTransientFrames attribute)
(PYME.recipes.localisations.LabelsFromImage attribute)
(PYME.recipes.localisations.MeasureClusters3D attribute)
(PYME.recipes.localisations.MergeClumps attribute)
(PYME.recipes.measurement.AddMetadataToMeasurements attribute)
(PYME.recipes.measurement.BinnedHistogram attribute)
(PYME.recipes.measurement.FitDumbells attribute)
(PYME.recipes.measurement.FitPoints attribute)
(PYME.recipes.measurement.Histogram attribute)
(PYME.recipes.measurement.ImageCumulativeHistogram attribute)
(PYME.recipes.measurement.ImageHistogram attribute)
(PYME.recipes.measurement.IntensityAtPoints attribute)
(PYME.recipes.measurement.MeanNeighbourDistances attribute)
(PYME.recipes.measurement.Measure2D attribute)
(PYME.recipes.measurement.MultifitBlobs attribute)
(PYME.recipes.measurement.NearestNeighbourDistances attribute)
(PYME.recipes.measurement.PairwiseDistanceHistogram attribute)
(PYME.recipes.measurement.Plot attribute)
(PYME.recipes.measurement.TilePhysicalCoords attribute)
(PYME.recipes.processing.FindCaWaves attribute)
(PYME.recipes.processing.FlatfiledAndDarkCorrect attribute)
(PYME.recipes.processing.VectorfieldNorm attribute)
(PYME.recipes.processing.Watershed attribute)
(PYME.recipes.processing.WavefrontDetection attribute)
(PYME.recipes.processing.WavefrontVelocity attribute)
(PYME.recipes.tablefilters.AggregateMeasurements attribute)
(PYME.recipes.tablefilters.ConcatenateTables attribute)
(PYME.recipes.tablefilters.FilterTable attribute)
(PYME.recipes.tablefilters.FilterTableByIDs attribute)
(PYME.recipes.tablefilters.Mapping attribute)
(PYME.recipes.tablefilters.SelectTableColumns attribute)
(PYME.recipes.tracking.FindClumps attribute)
(PYME.recipes.tracking.LoadSpeckles attribute)
outputNameP (PYME.recipes.processing.ProjectOnVector attribute)
outputNameS (PYME.recipes.processing.ProjectOnVector attribute)
outputNameX (PYME.recipes.processing.DirectionToMask3D attribute)
(PYME.recipes.processing.Gradient2D attribute)
(PYME.recipes.processing.Gradient3D attribute)
(PYME.recipes.processing.OpticalFlow attribute)
outputNameY (PYME.recipes.processing.DirectionToMask3D attribute)
(PYME.recipes.processing.Gradient2D attribute)
(PYME.recipes.processing.Gradient3D attribute)
(PYME.recipes.processing.OpticalFlow attribute)
outputNameZ (PYME.recipes.processing.DirectionToMask3D attribute)
(PYME.recipes.processing.Gradient3D attribute)
outputPhi (PYME.recipes.processing.VectorfieldAngle attribute)
outputPlot (PYME.recipes.processing.ColocalisationEDT attribute)
outputs (PYME.recipes.base.ModuleBase attribute)
(PYME.recipes.base.ModuleCollection attribute)
outputs_in_namespace() (PYME.recipes.base.ModuleBase method)
outputTable (PYME.recipes.processing.Colocalisation attribute)
(PYME.recipes.processing.ColocalisationEDT attribute)
outputTheta (PYME.recipes.processing.VectorfieldAngle attribute)
outputTrackInfo (PYME.recipes.tracking.TrackFeatures attribute)
outputTracks (PYME.recipes.tracking.ExtractTracks attribute)
(PYME.recipes.tracking.FitFusionTraces attribute)
(PYME.recipes.tracking.TrackFeatures attribute)
outputX (PYME.recipes.processing.VectorfieldCurl attribute)
outputY (PYME.recipes.processing.VectorfieldCurl attribute)
outputZ (PYME.recipes.processing.VectorfieldCurl attribute)
overlap() (in module PYME.Analysis.Colocalisation.correlationCoeffs)
OverlayPanel (class in PYME.DSView.OverlaysPanel)
P
p_poisson() (in module PYME.Analysis.cramerRao)
pa (PYME.Acquire.microscope.microscope attribute)
pack() (PYME.contrib.lzw.BitPacker method)
pack_results() (in module PYME.localization.FitFactories.fitCommon)
padding (PYME.recipes.processing.Deconvolve attribute)
PagingDecoder (class in PYME.contrib.lzw)
PagingEncoder (class in PYME.contrib.lzw)
pair_molecules() (in module PYME.Analysis.points.multiview)
PairwiseDistanceHistogram (class in PYME.recipes.measurement)
pan() (PYME.DSView.modules.graphViewPanel.MyNavigationToolbar method)
(PYME.DSView.modules.pupilView.MyNavigationToolbar method)
PanCamera() (PYME.Acquire.microscope.microscope method)
PanSpool (class in PYME.Acquire.ui.HDFSpoolFrame)
ParamGroup (class in PYME.localization.MetaDataEdit)
paramsToFit (PYME.recipes.tracking.FitFusionTraces attribute)
parse() (PYME.DSView.logparser.logparser method)
parseLines() (PYME.misc.zemax.Surface method)
Parser (class in PYME.util.mProfile.colorize_db_t)
parseURL() (in module PYME.IO.clusterIO)
ParticleTracker (class in PYME.LMVis.Extras.particleTracking)
PatchedServiceInfo (class in PYME.misc.pyme_zeroconf)
path_elem() (PYME.cluster.webdav.DAVRequestHandler method)
path_elem_prev() (PYME.cluster.webdav.DAVRequestHandler method)
pd() (PYME.Deconv.richardsonLucyMVM.MotionCompensatingRichardsonLucy method)
pearson() (in module PYME.Analysis.Colocalisation.correlationCoeffs)
percentile (PYME.recipes.processing.BackgroundSubtractionMovingAverage attribute)
(PYME.recipes.processing.BackgroundSubtractionMovingPercentile attribute)
performClassification() (in module PYME.Analysis.svmSegment)
PerFrameVar (class in PYME.LMVis.Extras.perFrameVariable)
PHASE (PYME.Acquire.stackSettings.StackSettings attribute)
Phi (PYME.DSView.modules.blobMeasure.DataBlock attribute)
photonconvert() (in module PYME.misc.shellutils)
pick_color() (PYME.LMVis.Extras.scaleBox.ScaleBoxPanel method)
pickleSlice() (in module PYME.localization.FitFactories.fitCommon)
pickResultsServer() (in module PYME.IO.clusterResults)
piecewiseLinear() (in module PYME.Analysis.piecewise)
piecewiseMap (class in PYME.Analysis.piecewiseMapping)
piezoGoHome() (PYME.Acquire.stackSettings.StackSettings method)
Pin() (PYME.ui.manualFoldPanel.foldingPane method)
pin_bits (in module PYME.ui.autoFoldPanel)
(in module PYME.ui.manualFoldPanel)
ping() (PYME.IO.clusterDuplication.DupManager method)
PinOpen() (PYME.ui.autoFoldPanel.foldingPane method)
(PYME.ui.manualFoldPanel.foldingPane method)
pipeline_view (PYME.recipes.base.ModuleBase attribute)
(PYME.recipes.base.ModuleCollection attribute)
(PYME.recipes.localisations.ExtractTableChannel attribute)
pipeline_view_min (PYME.recipes.base.ModuleBase attribute)
Pipelineify (class in PYME.recipes.localisations)
PipelinePanel (class in PYME.LMVis.pipelineView)
PipelineRecipeManager (class in PYME.recipes.recipeGui)
PipelineTable (class in PYME.LMVis.pipelineView)
PipelineTableGrid (class in PYME.LMVis.pipelineView)
pixelSize (PYME.IO.image.ImageStack attribute)
(PYME.recipes.localisations.DensityMapping attribute)
pixelSizeNM (PYME.recipes.localisations.Pipelineify attribute)
pkmod_onestate() (in module PYME.Analysis.BleachProfile.intensProf)
Plan (class in PYME.misc.fftw_compat)
play() (PYME.LMVis.Extras.animation.VideoPanel method)
player (class in PYME.DSView.modules.playback)
PlayEvents() (in module PYME.misc.eventSpy)
PlayPanel (class in PYME.DSView.modules.playback)
pLinkCutoff (PYME.recipes.tracking.TrackFeatures attribute)
Plot (class in PYME.recipes.graphing)
(class in PYME.recipes.measurement)
plot() (in module PYME.Analysis.graphing_filters)
(PYME.recipes.graphing.Plot method)
plot_and_fit() (in module PYME.Analysis.points.qpaint)
plot_fit_history() (PYME.localization.autopsf.autopsf.ZernikePSFModel method)
plot_image_dist_coloc_figure() (in module PYME.Analysis.Colocalisation.edtColoc)
plot_path() (in module PYME.localization.traveling_salesperson)
plot_vertical() (in module PYME.recipes.recipeLayout)
plotCRB() (in module PYME.Analysis.PSFGen.genCRBcurves)
plotFolded() (in module PYME.LMVis.Extras.multiviewMapping)
PlotPanel (class in PYME.contrib.wxPlotPanel)
plotphotons() (in module PYME.misc.shellutils)
plotProfile() (in module PYME.util.mProfile.tProfile)
plotRes() (PYME.localization.Test.fitTestJig.fitTestJig method)
(PYME.localization.Test.fitTestJigSCMOS.fitTestJig method)
(PYME.localization.Test.fitTestJigWC.fitTestJig method)
plotResSimp() (PYME.localization.Test.fitTestJigSCMOS.fitTestJig method)
(PYME.localization.Test.fitTestJigWC.fitTestJig method)
plotSample() (in module PYME.localization.autopsf.autopsf)
PlotShiftField() (in module PYME.Analysis.points.twoColourPlot)
PlotShiftField2() (in module PYME.Analysis.points.twoColourPlot)
PlotShiftResiduals() (in module PYME.Analysis.points.twoColourPlot)
PlotShiftResidualsS() (in module PYME.Analysis.points.twoColourPlot)
plotting_context (class in PYME.recipes.graphing)
Plug() (in module PYME.Acquire.ui.AnalysisSettingsUI)
(in module PYME.DSView.modules.annotation)
(in module PYME.DSView.modules.arrayView)
(in module PYME.DSView.modules.blobFinding)
(in module PYME.DSView.modules.blobMeasure)
(in module PYME.DSView.modules.coloc)
(in module PYME.DSView.modules.composite)
(in module PYME.DSView.modules.convnet)
(in module PYME.DSView.modules.cropping)
(in module PYME.DSView.modules.dark_and_flatfield)
(in module PYME.DSView.modules.deconvolution)
(in module PYME.DSView.modules.eventView)
(in module PYME.DSView.modules.fastGraphPanel)
(in module PYME.DSView.modules.filtering)
(in module PYME.DSView.modules.fourierRingCorrelation)
(in module PYME.DSView.modules.graphViewPanel)
(in module PYME.DSView.modules.manualSegment)
(in module PYME.DSView.modules.metadataView)
(in module PYME.DSView.modules.multithreshold)
(in module PYME.DSView.modules.playback)
(in module PYME.DSView.modules.prebleachExtraction)
(in module PYME.DSView.modules.profileFitting)
(in module PYME.DSView.modules.profilePlotting)
(in module PYME.DSView.modules.psfExtraction)
(in module PYME.DSView.modules.psfTools)
(in module PYME.DSView.modules.pupilTools)
(in module PYME.DSView.modules.pupilView)
(in module PYME.DSView.modules.segmentation)
(in module PYME.DSView.modules.sheetView)
(in module PYME.DSView.modules.shell)
(in module PYME.DSView.modules.sparkprepare)
(in module PYME.DSView.modules.splitter)
(in module PYME.DSView.modules.squiggleTools)
(in module PYME.DSView.modules.svmLabel)
(in module PYME.DSView.modules.synchronise)
(in module PYME.DSView.modules.tiling)
(in module PYME.DSView.modules.unmixing)
(in module PYME.DSView.modules.vis3D)
(in module PYME.DSView.modules.webview)
(in module PYME.LMVis.Extras.QPobjectSegment)
(in module PYME.LMVis.Extras.animation)
(in module PYME.LMVis.Extras.clusterAnalysis)
(in module PYME.LMVis.Extras.dockedPanel)
(in module PYME.LMVis.Extras.extra_layers)
(in module PYME.LMVis.Extras.fiducial)
(in module PYME.LMVis.Extras.flagZMotionArtifacts)
(in module PYME.LMVis.Extras.fusionUtils)
(in module PYME.LMVis.Extras.multiColourAnalysis)
(in module PYME.LMVis.Extras.multiviewMapping)
(in module PYME.LMVis.Extras.objectMeasurements)
(in module PYME.LMVis.Extras.particleTracking)
(in module PYME.LMVis.Extras.perFrameVariable)
(in module PYME.LMVis.Extras.photophysics)
(in module PYME.LMVis.Extras.pointwiseColoc)
(in module PYME.LMVis.Extras.saved_views)
(in module PYME.LMVis.Extras.scaleBox)
(in module PYME.LMVis.Extras.sequentialSpecies)
(in module PYME.LMVis.Extras.setBGImage)
(in module PYME.LMVis.Extras.shiftmapGenerator)
(in module PYME.LMVis.Extras.showShortcuts)
(in module PYME.LMVis.Extras.spherical_harmonics)
(in module PYME.LMVis.Extras.subsets)
(in module PYME.LMVis.Extras.surface_fitting)
(in module PYME.LMVis.Extras.temperaturePlot)
(in module PYME.LMVis.Extras.vibration)
pNew (PYME.recipes.tracking.TrackFeatures attribute)
point_mode (PYME.DSView.point_overlay.PointOverlay attribute)
pointDensityAtDistance() (in module PYME.Analysis.Colocalisation.edtColoc)
PointDisplay (class in PYME.DSView.overlays)
pointlHood() (PYME.Analysis.points.segmentLL.segmenter method)
PointOverlay (class in PYME.DSView.point_overlay)
points_per_chunk (PYME.recipes.measurement.ChunkedTravelingSalesperson attribute)
PointScanner (class in PYME.Acquire.Utils.MultiPointScanner)
(class in PYME.Acquire.Utils.pointScanner)
PointScanner3D (class in PYME.Acquire.Utils.pointScanner)
PointsHitTest() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
PointwiseColocaliser (class in PYME.LMVis.Extras.pointwiseColoc)
poll_timeouts() (PYME.cluster.ruleserver.IntegerIDRule method)
PopContext() (PYME.Analysis.processLogger.ContextManager method)
populate() (PYME.LMVis.filterPane.FilterPanel method)
PopulateMetadata() (PYME.Acquire.sampleInformation.SampleInfoDialog method)
popZero() (in module PYME.ParallelTasks.taskQueue)
PositionPanel (class in PYME.Acquire.ui.positionUI)
PositionSliders (class in PYME.Acquire.ui.positionUI)
PositionTracker (class in PYME.Acquire.positionTracker)
positivity() (in module PYME.Analysis.PSFEst.psfQuality)
post_rule() (PYME.cluster.HTTPRulePusher.HTTPRulePusher method)
postTask() (PYME.ParallelTasks.DSTaskQueue.DSTaskQueue method)
(PYME.ParallelTasks.HDFTaskQueue.HDFTaskQueue method)
(PYME.ParallelTasks.taskQueue.TaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
postTasks() (PYME.ParallelTasks.DSTaskQueue.DSTaskQueue method)
(PYME.ParallelTasks.HDFTaskQueue.HDFTaskQueue method)
(PYME.ParallelTasks.taskQueue.TaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
Pow (class in PYME.recipes.base)
power (PYME.recipes.base.Pow attribute)
powerMod2D() (in module PYME.Analysis.Tracking.trackUtils)
powerMod3D() (in module PYME.Analysis.Tracking.trackUtils)
PrebleachExtractor (class in PYME.DSView.modules.prebleachExtraction)
prefillSampleData() (in module PYME.Acquire.sampleInformation)
PreflightCheck() (PYME.Acquire.protocol.Protocol method)
(PYME.Acquire.protocol.TaskListProtocol method)
PreflightCheckItem (class in PYME.Acquire.protocol)
prep() (PYME.Deconv.dec.ClassicMappingFFTW method)
(PYME.Deconv.dec.DeconvMappingBase method)
Prepare() (PYME.Acquire.frameWrangler.FrameWrangler method)
prepare() (PYME.Analysis.PSFEst.dec.dec_psf method)
(PYME.Deconv.dec.dec_4pi_c method)
preparePSF() (in module PYME.localization.ofind_pri)
(in module PYME.localization.ofind_xcorr)
prepResultsFile() (PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.HDFTaskQueue.HDFTaskQueue method)
principalAxis (PYME.DSView.modules.blobMeasure.DataBlock attribute)
print_catalog_list() (in module PYME.misc.read_agf)
print_cycles() (in module PYME.misc.findCycles)
print_glass_list() (in module PYME.misc.read_agf)
print_glass_report() (in module PYME.misc.read_agf)
prob_predict() (in module PYME.Analysis.svmSegment)
probabilities() (PYME.Analysis.svmSegment.svmClassifier method)
probe (PYME.LMVis.tests.gl_test_objects.TestObject attribute)
(PYME.LMVis.tests.gl_test_objects.TestObjectContainer attribute)
probe_aware (PYME.recipes.multiview.FindClumps attribute)
probe_value (PYME.LMVis.tests.gl_test_objects.TestObject attribute)
probePoint() (PYME.Analysis.points.segmentLL.segmenter method)
ProcessColour (class in PYME.recipes.localisations)
processFramesIndividually (PYME.recipes.base.ArithmaticFilter attribute)
(PYME.recipes.base.Filter attribute)
(PYME.recipes.processing.DeconvolveMotionCompensating attribute)
(PYME.recipes.processing.Projection attribute)
(PYME.recipes.processing.Watershed attribute)
processIntensityTrace() (in module PYME.Analysis.BleachProfile.rawIntensity)
processTag() (PYME.cluster.webdav.XMLDict_Parser method)
procSkelFile() (in module PYME.Analysis.angleFilter)
prof_callback() (PYME.util.fProfile.fProfile.thread_profiler method)
profile_off() (in module PYME.util.mProfile.tProfile)
(PYME.util.fProfile.fProfile.thread_profiler method)
profile_on() (in module PYME.util.mProfile.tProfile)
(PYME.util.fProfile.fProfile.thread_profiler method)
profileOff() (in module PYME.util.mProfile.mProfile)
(PYME.util.fProfile.fProfile.thread_profiler method)
profileOn() (in module PYME.util.mProfile.mProfile)
(PYME.util.fProfile.fProfile.thread_profiler method)
profiler (class in PYME.DSView.modules.profilePlotting)
profiler() (in module PYME.util.mProfile.tProfile)
profOff() (in module PYME.util.mProfile.p)
profOn() (in module PYME.util.mProfile.p)
progPanel (class in PYME.LMVis.progGraph)
ProgressSelection() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.LMVis.imageView.ImageViewPanel method)
(PYME.LMVis.imageView2.ImageViewPanel method)
Project() (PYME.DSView.modules.filtering.filterer method)
Projection (class in PYME.recipes.processing)
ProjectOnVector (class in PYME.recipes.processing)
projectZ() (in module PYME.misc.zernike)
projectZ_rays() (in module PYME.misc.zernike)
propagate() (PYME.Analysis.PSFGen.fourier.FourierPropagator method)
(PYME.Analysis.PSFGen.fourierHNA.FourierPropagatorClipHNA method)
(PYME.Analysis.PSFGen.fourierHNA.FourierPropagatorHNA method)
(PYME.Analysis.PSFGen.fourierHNA2.FourierPropagatorClipHNA method)
(PYME.Analysis.PSFGen.fourierHNA2.FourierPropagatorHNA method)
propagate_r() (PYME.Analysis.PSFGen.fourierHNA.FourierPropagatorHNA method)
(PYME.Analysis.PSFGen.fourierHNA2.FourierPropagatorHNA method)
Protocol (class in PYME.Acquire.protocol)
protocol_version (PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler attribute)
(PYME.util.webframework.JSONAPIRequestHandler attribute)
ProvideStackMetadata() (PYME.Acquire.stackSettings.StackSettings method)
prune_dependencies_from_namespace() (PYME.recipes.base.ModuleCollection method)
PseudoPointList (class in PYME.localization.ofind)
(class in PYME.localization.ofind3d)
(class in PYME.localization.ofind_nofilt)
(class in PYME.localization.ofind_pri)
(class in PYME.localization.ofind_split)
(class in PYME.localization.ofind_xcorr)
psf() (PYME.Analysis.PSFGen.fourierHNA.FourierPSF method)
psf_calc() (PYME.Analysis.PSFEst.dec.dec_psf method)
(PYME.Deconv.dec.ClassicMappingFFTW method)
(PYME.Deconv.dec.ClassicMappingNP method)
(PYME.Deconv.dec.DeconvMappingBase method)
(PYME.Deconv.dec.SpatialConvolutionMapping method)
(PYME.Deconv.dec.dec_4pi method)
(PYME.Deconv.wiener.dec_wiener method)
PSF_from_pupil_and_propagator() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
PSFExporter (class in PYME.IO.dataExporter)
PsfExtractor (class in PYME.DSView.modules.psfExtraction)
psfFilename (PYME.recipes.processing.Deconvolve attribute)
PSFFitFactory (class in PYME.localization.FitFactories.InterpFitR)
(class in PYME.localization.FitFactories.LatPSFFitR)
(class in PYME.localization.FitFactories.PRInterpFitQR)
(class in PYME.localization.FitFactories.PRInterpFitR)
PSFFitResult (class in PYME.localization.FitFactories.LatPSFFitR)
PSFFitResultR() (in module PYME.localization.FitFactories.InterpFitR)
(in module PYME.localization.FitFactories.LatPSFFitR)
(in module PYME.localization.FitFactories.MultiviewFitInterpNR)
(in module PYME.localization.FitFactories.PRInterpFitQR)
(in module PYME.localization.FitFactories.PRInterpFitR)
(in module PYME.localization.FitFactories.SplitterFitInterpBNR)
(in module PYME.localization.FitFactories.SplitterFitInterpNR)
PsfFromPupil() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
PsfFromPupilVect() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
PSFQualityPanel (class in PYME.DSView.modules.psfTools)
PSFROIs (class in PYME.DSView.overlays)
psfSigma (PYME.recipes.tracking.FitFusionTraces attribute)
PSFTools (class in PYME.DSView.modules.psfTools)
psfType (PYME.recipes.processing.Deconvolve attribute)
pull_and_deblock() (PYME.Deconv.tq_block_dec.blocking_deconv method)
pupilSize (PYME.DSView.modules.psfTools.PSFTools attribute)
PupilTools (class in PYME.DSView.modules.pupilTools)
purge() (PYME.Acquire.frameWrangler.FrameWrangler method)
(PYME.Analysis.tile_pyramid.TileCache method)
(PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.taskQueue.TaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
push_deconv_tasks() (PYME.Deconv.tq_block_dec.blocking_deconv method)
put_file() (in module PYME.IO.clusterIO)
(PYME.IO.h5File.H5File method)
put_files() (in module PYME.IO.clusterIO)
px() (in module PYME.misc.shellutils)
py() (in module PYME.misc.shellutils)
PYME (module)
PYME.Acquire (module)
PYME.Acquire.acquiremainframe (module)
PYME.Acquire.ActionManager (module)
PYME.Acquire.autofocus (module)
PYME.Acquire.eventLog (module)
PYME.Acquire.ExecTools (module)
PYME.Acquire.frameWrangler (module)
PYME.Acquire.HDFSpooler (module)
PYME.Acquire.HTTPHDFSpooler (module)
PYME.Acquire.HTTPSpooler (module)
PYME.Acquire.microscope (module)
PYME.Acquire.positionTracker (module)
PYME.Acquire.protocol (module)
PYME.Acquire.PYMEAcquire (module)
PYME.Acquire.QueueSpooler (module)
PYME.Acquire.sampleInformation (module)
PYME.Acquire.setup (module)
PYME.Acquire.SpoolController (module)
PYME.Acquire.Spooler (module)
PYME.Acquire.stackSettings (module)
PYME.Acquire.ui (module)
PYME.Acquire.ui.actionUI (module)
PYME.Acquire.ui.AnalysisSettingsUI (module)
PYME.Acquire.ui.focus_lock_gui (module)
PYME.Acquire.ui.HDFSpoolFrame (module)
PYME.Acquire.ui.intsliders (module)
PYME.Acquire.ui.lasersliders (module)
PYME.Acquire.ui.multiview_select (module)
PYME.Acquire.ui.positionUI (module)
PYME.Acquire.ui.preflight (module)
PYME.Acquire.ui.scanner_panel (module)
PYME.Acquire.ui.selectCameraPanel (module)
PYME.Acquire.ui.seqdialog (module)
PYME.Acquire.ui.splashScreen (module)
PYME.Acquire.ui.tile_panel (module)
PYME.Acquire.ui.voxelSizeDialog (module)
PYME.Acquire.Utils (module)
PYME.Acquire.Utils.fastTiler (module)
PYME.Acquire.Utils.MultiPointScanner (module)
PYME.Acquire.Utils.pointScanner (module)
PYME.Acquire.Utils.sarcSpacing (module)
PYME.Acquire.Utils.strip_tiler (module)
PYME.Acquire.Utils.tiler (module)
PYME.Acquire.Utils.vibrationAnalysis (module)
PYME.Acquire.zScanner (module)
PYME.Analysis (module)
PYME.Analysis.angleFilter (module)
PYME.Analysis.annealThresh (module)
PYME.Analysis.autoencoder_classifier (module)
PYME.Analysis.binAvg (module)
PYME.Analysis.BleachProfile (module)
PYME.Analysis.BleachProfile.deMod (module)
PYME.Analysis.BleachProfile.fitRecover (module)
PYME.Analysis.BleachProfile.intensProf (module)
PYME.Analysis.BleachProfile.kinModels (module)
PYME.Analysis.BleachProfile.rawIntensity (module)
PYME.Analysis.BleachProfile.rollins (module)
PYME.Analysis.Colocalisation (module)
PYME.Analysis.Colocalisation.colocScaleDep (module)
PYME.Analysis.Colocalisation.correlationCoeffs (module)
PYME.Analysis.Colocalisation.distColoc (module)
PYME.Analysis.Colocalisation.edtColoc (module)
PYME.Analysis.cramerRao (module)
PYME.Analysis.density_filter (module)
PYME.Analysis.deTile (module)
PYME.Analysis.gen_sCMOS_maps (module)
PYME.Analysis.graphing_filters (module)
PYME.Analysis.implicitFilter (module)
PYME.Analysis.MetaData (module)
PYME.Analysis.optic_flow (module)
PYME.Analysis.piecewise (module)
PYME.Analysis.piecewiseMapping (module)
PYME.Analysis.points (module)
PYME.Analysis.points.arcfit (module)
PYME.Analysis.points.arcfit.setup (module)
PYME.Analysis.points.astigmatism (module)
PYME.Analysis.points.astigmatism.astigTools (module)
PYME.Analysis.points.astigmatism.setup (module)
PYME.Analysis.points.cluster_morphology (module)
PYME.Analysis.points.DeClump (module)
PYME.Analysis.points.DeClump.deClumpGUI (module)
PYME.Analysis.points.DeClump.pyDeClump (module)
PYME.Analysis.points.DeClump.setup (module)
PYME.Analysis.points.DeClump.testClump (module)
PYME.Analysis.points.DistHist (module)
PYME.Analysis.points.DistHist.distHistThreaded (module)
PYME.Analysis.points.DistHist.setup (module)
PYME.Analysis.points.EdgeDB (module)
PYME.Analysis.points.EdgeDB.edges (module)
PYME.Analysis.points.EdgeDB.edgeTest (module)
PYME.Analysis.points.EdgeDB.segment (module)
PYME.Analysis.points.EdgeDB.setup (module)
PYME.Analysis.points.fiducials (module)
PYME.Analysis.points.gen3DTriangs (module)
PYME.Analysis.points.moments (module)
PYME.Analysis.points.multiview (module)
PYME.Analysis.points.objectMeasure (module)
PYME.Analysis.points.qpaint (module)
PYME.Analysis.points.QuadTree (module)
PYME.Analysis.points.QuadTree.pointQT (module)
PYME.Analysis.points.QuadTree.pointQTF (module)
PYME.Analysis.points.QuadTree.QTrend (module)
PYME.Analysis.points.QuadTree.qtUtils (module)
PYME.Analysis.points.QuadTree.rendQT (module)
PYME.Analysis.points.rings (module)
PYME.Analysis.points.segmentLL (module)
PYME.Analysis.points.setup (module)
PYME.Analysis.points.SoftRend (module)
PYME.Analysis.points.SoftRend.setup (module)
PYME.Analysis.points.SoftRend.testTetrahedra (module)
PYME.Analysis.points.spherical_harmonics (module)
PYME.Analysis.points.surfit (module)
PYME.Analysis.points.tCluster (module)
PYME.Analysis.points.traveling_salesperson (module)
PYME.Analysis.points.traveling_salesperson.sectioned_two_opt (module)
PYME.Analysis.points.traveling_salesperson.sort (module)
PYME.Analysis.points.traveling_salesperson.two_opt (module)
PYME.Analysis.points.twoColour (module)
PYME.Analysis.points.twoColourPlot (module)
PYME.Analysis.processLogger (module)
PYME.Analysis.profile_extraction (module)
PYME.Analysis.PSFEst (module)
PYME.Analysis.PSFEst.dec (module)
PYME.Analysis.PSFEst.extractImages (module)
PYME.Analysis.PSFEst.psfQuality (module)
PYME.Analysis.PSFGen (module)
PYME.Analysis.PSFGen.fourier (module)
PYME.Analysis.PSFGen.fourierHNA (module)
PYME.Analysis.PSFGen.fourierHNA2 (module)
PYME.Analysis.PSFGen.genCRBcurves (module)
PYME.Analysis.PSFGen.nijboer_zernike (module)
PYME.Analysis.PSFGen.setup (module)
PYME.Analysis.PSFGen.test_ps_app (module)
PYME.Analysis.setup (module)
PYME.Analysis.svmSegment (module)
PYME.Analysis.thresholding (module)
PYME.Analysis.tile_pyramid (module)
PYME.Analysis.Tracking (module)
PYME.Analysis.Tracking.msd (module)
PYME.Analysis.Tracking.tracking (module)
PYME.Analysis.Tracking.trackUtils (module)
PYME.Analysis.widefieldify (module)
PYME.cluster (module)
PYME.cluster.cluster_of_one (module)
PYME.cluster.dataserver_wsgi (module)
PYME.cluster.distribution (module)
PYME.cluster.HTTPDataServer (module)
PYME.cluster.HTTPRulePusher (module)
PYME.cluster.HTTPTaskPusher (module)
PYME.cluster.PYMERuleNodeServer (module)
PYME.cluster.PYMERuleServer (module)
PYME.cluster.rulenodeserver (module)
PYME.cluster.ruleserver (module)
PYME.cluster.taskWorkerHTTP (module)
PYME.cluster.webdav (module)
PYME.config (module)
PYME.contrib (module)
PYME.contrib.aniso (module)
PYME.contrib.aniso.aniso (module)
PYME.contrib.auiFloatBook (module)
PYME.contrib.congrid (module)
PYME.contrib.gohlke (module)
PYME.contrib.gohlke.czifile (module)
PYME.contrib.gohlke.fcsfiles (module)
PYME.contrib.gohlke.setup (module)
PYME.contrib.gohlke.tifffile (module)
PYME.contrib.listctrlMixins (module)
PYME.contrib.lzw (module)
PYME.contrib.pad (module)
PYME.contrib.pad.info_pad (module)
PYME.contrib.pad.pad (module)
PYME.contrib.setup (module)
PYME.contrib.TextCtrlAutoComplete (module)
PYME.contrib.wxPlotPanel (module)
PYME.Deconv (module)
PYME.Deconv.beadGen (module)
PYME.Deconv.dec (module)
PYME.Deconv.dec_test (module)
PYME.Deconv.deconvDialogs (module)
PYME.Deconv.decTask (module)
PYME.Deconv.decThread (module)
PYME.Deconv.experimental (module)
PYME.Deconv.fftwWisdom (module)
PYME.Deconv.richardsonLucy (module)
PYME.Deconv.richardsonLucyMV (module)
PYME.Deconv.richardsonLucyMVM (module)
PYME.Deconv.test_block_dec (module)
PYME.Deconv.tq_block_dec (module)
PYME.Deconv.wiener (module)
PYME.DSView (module)
PYME.DSView.arrayViewPanel (module)
PYME.DSView.displayOptions (module)
PYME.DSView.DisplayOptionsPanel (module)
PYME.DSView.displaySettingsPanel (module)
PYME.DSView.dsviewer (module)
PYME.DSView.eventLogViewer (module)
PYME.DSView.fitInfo (module)
PYME.DSView.htmlServe (module)
PYME.DSView.logparser (module)
PYME.DSView.LUT (module)
PYME.DSView.LUT.setup (module)
PYME.DSView.modules (module)
PYME.DSView.modules.annotation (module)
PYME.DSView.modules.arrayView (module)
PYME.DSView.modules.blobFinding (module)
PYME.DSView.modules.blobMeasure (module)
PYME.DSView.modules.coloc (module)
PYME.DSView.modules.composite (module)
PYME.DSView.modules.convnet (module)
PYME.DSView.modules.cropping (module)
PYME.DSView.modules.dark_and_flatfield (module)
PYME.DSView.modules.deconvolution (module)
PYME.DSView.modules.eventView (module)
PYME.DSView.modules.extractBlobs (module)
PYME.DSView.modules.fastGraphPanel (module)
PYME.DSView.modules.filtering (module)
PYME.DSView.modules.fourierRingCorrelation (module)
PYME.DSView.modules.graphViewPanel (module)
PYME.DSView.modules.manualSegment (module)
PYME.DSView.modules.measure (module)
PYME.DSView.modules.measure.filterPan (module)
PYME.DSView.modules.metadataView (module)
PYME.DSView.modules.multithreshold (module)
PYME.DSView.modules.playback (module)
PYME.DSView.modules.prebleachExtraction (module)
PYME.DSView.modules.profileFitting (module)
PYME.DSView.modules.profilePlotting (module)
PYME.DSView.modules.psfExtraction (module)
PYME.DSView.modules.psfTools (module)
PYME.DSView.modules.pupilTools (module)
PYME.DSView.modules.pupilView (module)
PYME.DSView.modules.segmentation (module)
PYME.DSView.modules.sheetView (module)
PYME.DSView.modules.shell (module)
PYME.DSView.modules.sparkprepare (module)
PYME.DSView.modules.splitter (module)
PYME.DSView.modules.squiggleTools (module)
PYME.DSView.modules.svmLabel (module)
PYME.DSView.modules.synchronise (module)
PYME.DSView.modules.tiling (module)
PYME.DSView.modules.unmixing (module)
PYME.DSView.modules.vis3D (module)
PYME.DSView.modules.webview (module)
PYME.DSView.overlays (module)
PYME.DSView.OverlaysPanel (module)
PYME.DSView.point_overlay (module)
PYME.DSView.scrolledImagePanel (module)
PYME.DSView.setup (module)
PYME.DSView.splashScreen (module)
PYME.DSView.voxSizeDialog (module)
PYME.IO (module)
PYME.IO.buffer_helpers (module)
PYME.IO.buffers (module)
PYME.IO.clusterDuplication (module)
PYME.IO.clusterExport (module)
PYME.IO.clusterGlob (module)
PYME.IO.clusterIO (module)
PYME.IO.clusterListing (module)
PYME.IO.clusterResults (module)
PYME.IO.clusterUpload (module)
PYME.IO.countdir (module)
PYME.IO.countdir.setup (module)
PYME.IO.dataExporter (module)
PYME.IO.DataSources (module)
PYME.IO.DataSources.AlignDataSource (module)
PYME.IO.DataSources.ArrayDataSource (module)
PYME.IO.DataSources.BaseDataSource (module)
PYME.IO.DataSources.BGSDataSource (module)
PYME.IO.DataSources.BioformatsDataSource (module)
PYME.IO.DataSources.BufferedDataSource (module)
PYME.IO.DataSources.ClusterPZFDataSource (module)
PYME.IO.DataSources.CropDataSource (module)
PYME.IO.DataSources.DcimgDataSource (module)
PYME.IO.DataSources.FlatFieldDataSource (module)
PYME.IO.DataSources.HDFDataSource (module)
PYME.IO.DataSources.HTTPDataSource (module)
PYME.IO.DataSources.ImageSeriesDataSource (module)
PYME.IO.DataSources.MultiviewDataSource (module)
PYME.IO.DataSources.RandomDataSource (module)
PYME.IO.DataSources.SupertileDatasource (module)
PYME.IO.DataSources.TiffDataSource (module)
PYME.IO.DataSources.TQDataSource (module)
PYME.IO.DataSources.UnsplitDataSource (module)
PYME.IO.dataWrap (module)
PYME.IO.dcimg (module)
PYME.IO.FileUtils (module)
PYME.IO.FileUtils.compHdf (module)
PYME.IO.FileUtils.fileID (module)
PYME.IO.FileUtils.fnlGen (module)
PYME.IO.FileUtils.freeSpace (module)
PYME.IO.FileUtils.h5ExFrames (module)
PYME.IO.FileUtils.h5rToTxt (module)
PYME.IO.FileUtils.h5ToTiffSeries (module)
PYME.IO.FileUtils.IJLut (module)
PYME.IO.FileUtils.nameUtils (module)
PYME.IO.FileUtils.ply (module)
PYME.IO.FileUtils.RawToHdf5 (module)
PYME.IO.FileUtils.readSpeckle (module)
PYME.IO.FileUtils.readTiff (module)
PYME.IO.FileUtils.saveTiffStack (module)
PYME.IO.FileUtils.setup (module)
PYME.IO.FileUtils.SPAD (module)
PYME.IO.FileUtils.stl (module)
PYME.IO.FileUtils.thumbnailDatabase (module)
PYME.IO.FileUtils.TiffSeqToHdf5 (module)
PYME.IO.h5File (module)
PYME.IO.h5rFile (module)
PYME.IO.image (module)
PYME.IO.load_psf (module)
PYME.IO.MetaDataHandler (module)
PYME.IO.pyme_h5ls (module)
PYME.IO.PZFFormat (module)
PYME.IO.ragged (module)
PYME.IO.rgb_image (module)
PYME.IO.setup (module)
PYME.IO.tabular (module)
PYME.IO.testClusterSpooling (module)
PYME.IO.unifiedIO (module)
PYME.LMVis (module)
PYME.LMVis.colourFilterGUI (module)
PYME.LMVis.colourPanel (module)
PYME.LMVis.displayPane (module)
PYME.LMVis.dyeRatios (module)
PYME.LMVis.editFilterDialog (module)
PYME.LMVis.Extras (module)
PYME.LMVis.Extras.animation (module)
PYME.LMVis.Extras.clusterAnalysis (module)
PYME.LMVis.Extras.dockedPanel (module)
PYME.LMVis.Extras.extra_layers (module)
PYME.LMVis.Extras.fiducial (module)
PYME.LMVis.Extras.flagZMotionArtifacts (module)
PYME.LMVis.Extras.fusionUtils (module)
PYME.LMVis.Extras.multiColourAnalysis (module)
PYME.LMVis.Extras.multiviewMapping (module)
PYME.LMVis.Extras.objectMeasurements (module)
PYME.LMVis.Extras.particleTracking (module)
PYME.LMVis.Extras.perFrameVariable (module)
PYME.LMVis.Extras.photophysics (module)
PYME.LMVis.Extras.pointwiseColoc (module)
PYME.LMVis.Extras.QPobjectSegment (module)
PYME.LMVis.Extras.saved_views (module)
PYME.LMVis.Extras.scaleBox (module)
PYME.LMVis.Extras.sequentialSpecies (module)
PYME.LMVis.Extras.setBGImage (module)
PYME.LMVis.Extras.shiftmapGenerator (module)
PYME.LMVis.Extras.showShortcuts (module)
PYME.LMVis.Extras.spherical_harmonics (module)
PYME.LMVis.Extras.subsets (module)
PYME.LMVis.Extras.surface_fitting (module)
PYME.LMVis.Extras.temperaturePlot (module)
PYME.LMVis.Extras.vibration (module)
PYME.LMVis.filterPane (module)
PYME.LMVis.genImageDialog (module)
PYME.LMVis.imageView (module)
PYME.LMVis.imageView2 (module)
PYME.LMVis.importTextDialog (module)
PYME.LMVis.objectDarkMeasure (module)
PYME.LMVis.pipelineView (module)
PYME.LMVis.progGraph (module)
PYME.LMVis.renderers (module)
PYME.LMVis.rendGauss (module)
PYME.LMVis.setup (module)
PYME.LMVis.setup_exe (module)
PYME.LMVis.shader_programs (module)
PYME.LMVis.shader_programs.shader_loader (module)
PYME.LMVis.shader_programs.ShaderProgramFactory (module)
PYME.LMVis.statusLog (module)
PYME.LMVis.tests (module)
PYME.LMVis.tests.gl_test_objects (module)
PYME.LMVis.views (module)
PYME.LMVis.visHelpers (module)
PYME.LMVis.visHelpersMin (module)
PYME.LMVis.workspaceTree (module)
PYME.localization (module)
PYME.localization.autopsf (module)
PYME.localization.autopsf.autopsf (module)
PYME.localization.autopsf.roifit (module)
PYME.localization.cInterp (module)
PYME.localization.cInterp.setup (module)
PYME.localization.cModels (module)
PYME.localization.cModels.setup (module)
PYME.localization.FitFactories (module)
PYME.localization.FitFactories.AstigGaussFitFR (module)
PYME.localization.FitFactories.AstigGaussGPUFitFR (module)
PYME.localization.FitFactories.BeadConvolvedAstigGaussFit (module)
PYME.localization.FitFactories.ConfocCOIR (module)
PYME.localization.FitFactories.DumbellFitR (module)
PYME.localization.FitFactories.FFBase (module)
PYME.localization.FitFactories.fitCommon (module)
PYME.localization.FitFactories.Gauss3DFitR (module)
PYME.localization.FitFactories.GaussFitConstrR (module)
PYME.localization.FitFactories.GaussMultifitLinesR (module)
PYME.localization.FitFactories.GaussMultifitR (module)
PYME.localization.FitFactories.GaussMultifitSR (module)
PYME.localization.FitFactories.InterpFitR (module)
PYME.localization.FitFactories.InterpFitWFR (module)
PYME.localization.FitFactories.Interpolators (module)
PYME.localization.FitFactories.Interpolators.baseInterpolator (module)
PYME.localization.FitFactories.Interpolators.CSInterpolator (module)
PYME.localization.FitFactories.Interpolators.CubeSInterpolatorP (module)
PYME.localization.FitFactories.Interpolators.CubicSplineInterpolator (module)
PYME.localization.FitFactories.Interpolators.LinearInterpolator (module)
PYME.localization.FitFactories.Interpolators.LinearPInterpolatorP (module)
PYME.localization.FitFactories.LatFitCOIR (module)
PYME.localization.FitFactories.LatGaussFitFR (module)
PYME.localization.FitFactories.LatObjFindFR (module)
PYME.localization.FitFactories.LatPSFFitR (module)
PYME.localization.FitFactories.MultiviewFitInterpNR (module)
PYME.localization.FitFactories.PRInterpFitQR (module)
PYME.localization.FitFactories.PRInterpFitR (module)
PYME.localization.FitFactories.ROIExtractNR (module)
PYME.localization.FitFactories.SpecGaussFitFR (module)
PYME.localization.FitFactories.SplitterFitCOIR (module)
PYME.localization.FitFactories.SplitterFitFNR (module)
PYME.localization.FitFactories.SplitterFitFusionR (module)
PYME.localization.FitFactories.SplitterFitInterpBNR (module)
PYME.localization.FitFactories.SplitterFitInterpNR (module)
PYME.localization.FitFactories.SplitterMultifitSR (module)
PYME.localization.FitFactories.SplitterObjFindR (module)
PYME.localization.FitFactories.SplitterROIExtractNR (module)
PYME.localization.FitFactories.SplitterShiftEstFR (module)
PYME.localization.FitFactories.zEstimators (module)
PYME.localization.FitFactories.zEstimators.astigEstimator (module)
PYME.localization.FitFactories.zEstimators.biplaneEstimator (module)
PYME.localization.FitFactories.zEstimators.genericDualEstimator (module)
PYME.localization.FitFactories.zEstimators.genericEstimator (module)
PYME.localization.FitFactories.zEstimators.priEstimator (module)
PYME.localization.genmaps (module)
PYME.localization.lev_gfit (module)
PYME.localization.lev_gfit.setup (module)
PYME.localization.MetaDataEdit (module)
PYME.localization.ofind (module)
PYME.localization.ofind3d (module)
PYME.localization.ofind_nofilt (module)
PYME.localization.ofind_pri (module)
PYME.localization.ofind_split (module)
PYME.localization.ofind_xcorr (module)
PYME.localization.remFitBuf (module)
PYME.localization.setup (module)
PYME.localization.splitting (module)
PYME.localization.Test (module)
PYME.localization.Test.fitTestJig (module)
PYME.localization.Test.fitTestJigSCMOS (module)
PYME.localization.Test.fitTestJigWC (module)
PYME.localization.traveling_salesperson (module)
PYME.localization.twist (module)
PYME.misc (module)
PYME.misc.aligned_array (module)
PYME.misc.aniso (module)
PYME.misc.colorsys (module)
PYME.misc.computerName (module)
PYME.misc.coverslipGeometries (module)
PYME.misc.cython_numpy_monkey (module)
PYME.misc.depGraph (module)
PYME.misc.dirSize (module)
PYME.misc.diskCleanup (module)
PYME.misc.django_widgets (module)
PYME.misc.djangoRecarray (module)
PYME.misc.editgrid (module)
PYME.misc.eventSpy (module)
PYME.misc.extraCMaps (module)
PYME.misc.facsPlot (module)
PYME.misc.fbpIcons (module)
PYME.misc.fftw_compat (module)
PYME.misc.findCycles (module)
PYME.misc.fortran_interrupt_defeat (module)
PYME.misc.glassModel (module)
PYME.misc.hash32 (module)
PYME.misc.kdFit (module)
PYME.misc.locate (module)
PYME.misc.memUsage (module)
PYME.misc.mock_ctypes (module)
PYME.misc.mock_traits (module)
PYME.misc.mock_traitsui (module)
PYME.misc.pyme_zeroconf (module)
PYME.misc.pyro_tracebacks (module)
PYME.misc.read_agf (module)
PYME.misc.sffake (module)
PYME.misc.shellutils (module)
PYME.misc.snells (module)
PYME.misc.sqlitendarray (module)
PYME.misc.startCommentify (module)
PYME.misc.tempLogger (module)
PYME.misc.tempMonitor (module)
PYME.misc.TiffImagePlugin (module)
PYME.misc.TiSettings (module)
PYME.misc.wxThread (module)
PYME.misc.zemax (module)
PYME.misc.zernike (module)
PYME.ParallelTasks (module)
PYME.ParallelTasks.DSTaskQueue (module)
PYME.ParallelTasks.fitMon (module)
PYME.ParallelTasks.fitMonP (module)
PYME.ParallelTasks.HDFTaskQueue (module)
PYME.ParallelTasks.launchWorkers (module)
PYME.ParallelTasks.setup_exe (module)
PYME.ParallelTasks.taskDef (module)
PYME.ParallelTasks.taskQueue (module)
PYME.ParallelTasks.taskServerZC (module)
PYME.ParallelTasks.taskWorkerZC (module)
PYME.recipes (module)
PYME.recipes.bakeshop (module)
PYME.recipes.base (module)
PYME.recipes.batchProcess (module)
PYME.recipes.filters (module)
PYME.recipes.fudges (module)
PYME.recipes.graphing (module)
PYME.recipes.localisations (module)
PYME.recipes.machine_learning (module)
PYME.recipes.measurement (module)
PYME.recipes.modules (module)
PYME.recipes.multiview (module)
PYME.recipes.output (module)
PYME.recipes.pointcloud (module)
PYME.recipes.processing (module)
PYME.recipes.recipeGui (module)
PYME.recipes.recipeLayout (module)
PYME.recipes.runRecipe (module)
PYME.recipes.setup (module)
PYME.recipes.surface_fitting (module)
PYME.recipes.tablefilters (module)
PYME.recipes.tracking (module)
PYME.recipes.traits (module)
PYME.recipes.vertical_recipe_display (module)
PYME.resources (module)
PYME.resources.setup (module)
PYME.setup (module)
PYME.setup_exe (module)
PYME.simulation (module)
PYME.simulation.locify (module)
PYME.tileviewer (module)
PYME.tileviewer.tileviewer (module)
PYME.ui (module)
PYME.ui.AUIFrame (module)
PYME.ui.autoFoldPanel (module)
PYME.ui.editList (module)
PYME.ui.fastGraph (module)
PYME.ui.histLimits (module)
PYME.ui.manualFoldPanel (module)
PYME.ui.MetadataTree (module)
PYME.ui.mytimer (module)
PYME.ui.recArrayView (module)
PYME.update_version (module)
PYME.util (module)
PYME.util.execfile (module)
PYME.util.fProfile (module)
PYME.util.fProfile.convertProfile (module)
PYME.util.fProfile.fProfile (module)
PYME.util.fProfile.viewProfile (module)
PYME.util.mProfile (module)
PYME.util.mProfile.colorize_db_t (module)
PYME.util.mProfile.mProfile (module)
PYME.util.mProfile.p (module)
PYME.util.mProfile.tProfile (module)
PYME.util.shmarray (module)
PYME.util.shmarray.shmarray (module)
PYME.util.shmarray.shmTest (module)
PYME.util.webframework (module)
PYME.version (module)
PYMEHTTPRequestHandler (class in PYME.cluster.HTTPDataServer)
PYMEMainFrame (class in PYME.Acquire.acquiremainframe)
pzf_index (PYME.IO.DataSources.HDFDataSource.DataSource attribute)
(PYME.IO.h5File.H5File attribute)
PZFCompression (PYME.IO.h5File.H5File attribute)
PZFTileCache (class in PYME.Analysis.tile_pyramid)
PZFTileIO (class in PYME.Analysis.tile_pyramid)
Q
qpaint1mod() (in module PYME.Analysis.points.qpaint)
qpaint2mod() (in module PYME.Analysis.points.qpaint)
QPObjectSegmenter (class in PYME.LMVis.Extras.QPobjectSegment)
qsToRecarray() (in module PYME.misc.djangoRecarray)
qtBranchNode (class in PYME.Analysis.points.QuadTree.pointQT)
(class in PYME.Analysis.points.QuadTree.pointQTF)
qtLeafNode (class in PYME.Analysis.points.QuadTree.pointQT)
(class in PYME.Analysis.points.QuadTree.pointQTF)
qtNode (class in PYME.Analysis.points.QuadTree.pointQT)
(class in PYME.Analysis.points.QuadTree.pointQTF)
qtRec (class in PYME.Analysis.points.QuadTree.pointQT)
(class in PYME.Analysis.points.QuadTree.pointQTF)
QTRendererNode (class in PYME.Analysis.points.QuadTree.QTrend)
qtRoot (class in PYME.Analysis.points.QuadTree.pointQT)
(class in PYME.Analysis.points.QuadTree.pointQTF)
quad_rot_surf_misfit() (in module PYME.Analysis.points.surfit)
QuadTreeRenderer (class in PYME.LMVis.renderers)
QueueAction() (PYME.Acquire.ActionManager.ActionManager method)
QueueMDHandler (class in PYME.IO.MetaDataHandler)
R
R (PYME.DSView.modules.blobMeasure.DataBlock attribute)
r (PYME.DSView.modules.blobMeasure.DataBlock attribute)
r0 (PYME.recipes.tracking.TrackFeatures attribute)
r_sph_harm() (in module PYME.Analysis.points.spherical_harmonics)
radial_analysis_tabular() (in module PYME.Analysis.points.rings)
RadialDistN() (PYME.DSView.modules.blobMeasure.BlobObject method)
radialDistN() (PYME.DSView.modules.blobMeasure.BlobObject method)
radii (PYME.recipes.measurement.IntensityAtPoints attribute)
radius (PYME.recipes.processing.BinaryDilation attribute)
(PYME.recipes.processing.BinaryErosion attribute)
(PYME.recipes.processing.BinaryFillHoles attribute)
(PYME.recipes.processing.GreyDilation attribute)
(PYME.recipes.processing.GreyErosion attribute)
(PYME.recipes.processing.WhiteTophat attribute)
radius_offset (PYME.recipes.multiview.FindClumps attribute)
radius_scale (PYME.recipes.multiview.FindClumps attribute)
RaggedBase (class in PYME.IO.ragged)
RaggedCache (class in PYME.IO.ragged)
RaggedJSON (class in PYME.IO.ragged)
RaggedVLArray (class in PYME.IO.ragged)
rand() (in module PYME.Analysis.BleachProfile.deMod)
(in module PYME.Analysis.Colocalisation.colocScaleDep)
(in module PYME.Analysis.PSFEst.dec)
(in module PYME.Deconv.dec)
(in module PYME.Deconv.richardsonLucy)
(in module PYME.Deconv.richardsonLucyMV)
(in module PYME.Deconv.richardsonLucyMVM)
(in module PYME.Deconv.tq_block_dec)
(in module PYME.LMVis.rendGauss)
(in module PYME.simulation.locify)
randmapping() (in module PYME.misc.shellutils)
randn() (in module PYME.Analysis.BleachProfile.deMod)
(in module PYME.Analysis.PSFEst.dec)
(in module PYME.Deconv.dec)
(in module PYME.Deconv.richardsonLucy)
(in module PYME.Deconv.richardsonLucyMV)
(in module PYME.Deconv.richardsonLucyMVM)
(in module PYME.Deconv.tq_block_dec)
(in module PYME.LMVis.rendGauss)
RandomSelectionFilter (class in PYME.IO.tabular)
randomSelectionFilter() (in module PYME.IO.tabular)
RandomSource (class in PYME.IO.tabular)
randomSource() (in module PYME.IO.tabular)
RandomSubset (class in PYME.recipes.tablefilters)
RangeParam (class in PYME.localization.MetaDataEdit)
rasterize() (PYME.DSView.modules.annotation.Annotater method)
Rater (class in PYME.cluster.rulenodeserver)
ratios_from_metadata (PYME.recipes.localisations.ProcessColour attribute)
re_enumerate() (PYME.LMVis.tests.gl_test_objects.GridContainer method)
read() (in module PYME.IO.unifiedIO)
(PYME.misc.TiSettings.TiSettings method)
read3DTiff() (in module PYME.IO.FileUtils.readTiff)
read_bead_data() (in module PYME.Analysis.points.twoColour)
read_cached_zar() (in module PYME.misc.zemax)
read_cat_from_lines() (in module PYME.misc.read_agf)
read_cat_from_string() (in module PYME.misc.read_agf)
read_file() (PYME.LMVis.shader_programs.shader_loader.ShaderLoader method)
read_file_with_path() (PYME.LMVis.shader_programs.shader_loader.ShaderLoader method)
read_glasscat() (in module PYME.misc.read_agf)
read_h5f_cols() (in module PYME.Analysis.points.twoColour)
readbytes() (in module PYME.contrib.lzw)
readSpeckles() (in module PYME.IO.FileUtils.readSpeckle)
readZar() (in module PYME.misc.zemax)
rebin() (in module PYME.Analysis.Colocalisation.distColoc)
rebuild() (PYME.ui.MetadataTree.MetadataPanel method)
recArrayInput() (in module PYME.IO.tabular)
recArrayPanel (class in PYME.ui.recArrayView)
RecArraySource (class in PYME.IO.tabular)
RecArrayTable (class in PYME.ui.recArrayView)
RecarrayTableGrid (class in PYME.ui.recArrayView)
RecipeDisplayPanel (class in PYME.recipes.vertical_recipe_display)
RecipeManager (class in PYME.recipes.recipeGui)
RecipePlotPanel (class in PYME.recipes.recipeGui)
RecipePusher (class in PYME.cluster.HTTPRulePusher)
(class in PYME.cluster.HTTPTaskPusher)
RecipeView (class in PYME.recipes.recipeGui)
recolor() (in module PYME.Analysis.BleachProfile.intensProf)
recommendedVariables (PYME.LMVis.importTextDialog.ImportTextDialog attribute)
reconstruct_from_modes() (in module PYME.Analysis.points.spherical_harmonics)
reconstruct_quad_surf() (in module PYME.Analysis.points.surfit)
reconstruct_quad_surf_region_cropped() (in module PYME.Analysis.points.surfit)
reconstruct_quad_surfaces() (in module PYME.Analysis.points.surfit)
reconstruct_quad_surfaces_P() (in module PYME.Analysis.points.surfit)
reconstruct_quad_surfaces_P_region_cropped() (in module PYME.Analysis.points.surfit)
reconstruct_quad_surfaces_Pr() (in module PYME.Analysis.points.surfit)
reconstruct_quad_surfaces_Pr_region_cropped() (in module PYME.Analysis.points.surfit)
reconstruction_point_spacing (PYME.recipes.surface_fitting.FitSurfaceWithPatches attribute)
reconstruction_radius (PYME.recipes.surface_fitting.FitSurfaceWithPatches attribute)
recreate() (PYME.IO.MetaDataHandler.CachingMDHandler class method)
(PYME.misc.eventSpy.eventInfo method)
recvMember() (PYME.cluster.webdav.DirCollection method)
(PYME.cluster.webdav.TempDirCollection method)
Red() (in module PYME.misc.extraCMaps)
Redraw() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
reduce_catalog() (in module PYME.misc.read_agf)
refill() (PYME.LMVis.Extras.animation.VideoPanel method)
refr() (PYME.ui.fastGraph.SpecGraphPanel method)
refract (PYME.misc.zemax.DefaultGlass attribute)
RefrData() (PYME.DSView.displaySettingsPanel.dispSettingsPanel method)
(PYME.DSView.displaySettingsPanel.dispSettingsPanel2 method)
refresh() (PYME.Acquire.ui.focus_lock_gui.FocusLockPanel method)
(PYME.LMVis.colourPanel.colourPanel method)
refresh_canvas() (PYME.LMVis.Extras.scaleBox.ScaleBoxPanel method)
refresh_warpdrive() (PYME.localization.FitFactories.AstigGaussGPUFitFR.GaussianFitFactory method)
RefreshHists() (PYME.DSView.DisplayOptionsPanel.OptionsPanel method)
RefreshRows() (PYME.contrib.listctrlMixins.ListRowHighlighter method)
RefreshScrollbars() (PYME.DSView.scrolledImagePanel.ScrolledImagePanel method)
reg_of() (in module PYME.Analysis.optic_flow)
regCmap() (in module PYME.misc.extraCMaps)
RegenSizer() (PYME.ui.autoFoldPanel.foldPanel method)
(PYME.ui.manualFoldPanel.foldPanel method)
register() (PYME.misc.pyme_zeroconf.ZeroConfNS method)
register_camera() (PYME.Acquire.microscope.microscope method)
register_cmap() (in module PYME.misc.extraCMaps)
register_endpoint() (in module PYME.util.webframework)
register_legacy_module() (in module PYME.recipes.base)
register_module() (in module PYME.recipes.base)
register_piezo() (PYME.Acquire.microscope.microscope method)
register_service() (PYME.misc.pyme_zeroconf.ZeroConfNS method)
registerChangeListener() (PYME.Acquire.microscope.StateManager method)
registerHandler() (PYME.Acquire.microscope.StateManager method)
regularisationLambda (PYME.recipes.processing.Deconvolve attribute)
regularizationLambda (PYME.recipes.processing.OpticalFlow attribute)
reject_key (PYME.recipes.measurement.IdentifyOverlappingROIs attribute)
rel_dirname (PYME.Acquire.SpoolController.SpoolController attribute)
rel_tolerance (PYME.recipes.base.IsClose attribute)
release() (PYME.DSView.modules.graphViewPanel.MyNavigationToolbar method)
(PYME.DSView.modules.pupilView.MyNavigationToolbar method)
(PYME.IO.DataSources.AlignDataSource.DataSource method)
(PYME.IO.DataSources.BGSDataSource.DataSource method)
(PYME.IO.DataSources.BioformatsDataSource.DataSource method)
(PYME.IO.DataSources.BufferedDataSource.DataSource method)
(PYME.IO.DataSources.CropDataSource.DataSource method)
(PYME.IO.DataSources.DcimgDataSource.DataSource method)
(PYME.IO.DataSources.FlatFieldDataSource.DataSource method)
(PYME.IO.DataSources.HDFDataSource.DataSource method)
(PYME.IO.DataSources.ImageSeriesDataSource.DataSource method)
(PYME.IO.DataSources.MultiviewDataSource.DataSource method)
(PYME.IO.DataSources.SupertileDatasource.DataSource method)
(PYME.IO.DataSources.TiffDataSource.DataSource method)
(PYME.IO.DataSources.UnsplitDataSource.DataSource method)
(PYME.ParallelTasks.HDFTaskQueue.myLock method)
release_rule_tasks() (PYME.cluster.ruleserver.RuleServer method)
release_VM() (in module PYME.IO.DataSources.BioformatsDataSource)
releaseTasks() (PYME.ParallelTasks.DSTaskQueue.DSTaskQueue method)
(PYME.ParallelTasks.HDFTaskQueue.HDFTaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
reloadData() (PYME.IO.DataSources.AlignDataSource.DataSource method)
(PYME.IO.DataSources.BGSDataSource.DataSource method)
(PYME.IO.DataSources.BioformatsDataSource.DataSource method)
(PYME.IO.DataSources.BufferedDataSource.DataSource method)
(PYME.IO.DataSources.CropDataSource.DataSource method)
(PYME.IO.DataSources.DcimgDataSource.DataSource method)
(PYME.IO.DataSources.HDFDataSource.DataSource method)
(PYME.IO.DataSources.ImageSeriesDataSource.DataSource method)
(PYME.IO.DataSources.MultiviewDataSource.DataSource method)
(PYME.IO.DataSources.SupertileDatasource.DataSource method)
(PYME.IO.DataSources.TiffDataSource.DataSource method)
(PYME.IO.DataSources.UnsplitDataSource.DataSource method)
remap_splitter_coords() (in module PYME.localization.splitting)
remap_splitter_coords_() (in module PYME.localization.splitting)
RemapData() (PYME.DSView.modules.composite.compositor method)
remesh (PYME.recipes.surface_fitting.DualMarchingCubes attribute)
(PYME.recipes.surface_fitting.MarchingTetrahedra attribute)
remove() (PYME.Analysis.tile_pyramid.TileCache method)
remove_newlines() (in module PYME.DSView.modules.psfTools)
remove_service() (PYME.misc.pyme_zeroconf.ZCListener method)
removeFrame() (PYME.IO.buffers.bgFrameBuffer method)
(PYME.IO.DataSources.BGSDataSource.bgFrameBuffer method)
(PYME.IO.buffers.bgFrameBufferC method)
removeInternalFaces() (in module PYME.Analysis.points.gen3DTriangs)
removeQueue() (PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
rend() (in module PYME.Analysis.points.surfit)
rend_density_estimate() (in module PYME.LMVis.visHelpers)
Render() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
render() (PYME.misc.django_widgets.ClusterFileInput method)
renderFit() (PYME.localization.FitFactories.Gauss3DFitR.GaussFitResult method)
(PYME.localization.FitFactories.LatPSFFitR.PSFFitResult method)
renderingModule (PYME.recipes.localisations.DensityMapping attribute)
renderTetrahedra() (in module PYME.Analysis.points.gen3DTriangs)
rendGauss() (in module PYME.LMVis.rendGauss)
(in module PYME.LMVis.visHelpers)
rendGauss3D() (in module PYME.LMVis.visHelpers)
rendGaussNested() (in module PYME.LMVis.rendGauss)
rendGaussNestedPS() (in module PYME.LMVis.rendGauss)
rendGaussNestedXYCorr() (in module PYME.LMVis.rendGauss)
rendGaussP() (in module PYME.LMVis.rendGauss)
rendGaussProd() (in module PYME.LMVis.visHelpers)
rendHist() (in module PYME.LMVis.rendGauss)
(in module PYME.LMVis.visHelpers)
(in module PYME.LMVis.visHelpersMin)
rendHist3D() (in module PYME.LMVis.visHelpers)
(in module PYME.LMVis.visHelpersMin)
rendHistF() (in module PYME.LMVis.rendGauss)
rendJitTet() (in module PYME.LMVis.visHelpers)
(in module PYME.LMVis.visHelpersMin)
rendJitTri() (in module PYME.LMVis.visHelpers)
(in module PYME.LMVis.visHelpersMin)
rendJitTri2() (in module PYME.LMVis.visHelpers)
rendJitTriang() (in module PYME.LMVis.visHelpers)
(in module PYME.LMVis.visHelpersMin)
rendJitTriang2() (in module PYME.LMVis.visHelpers)
rendJTet() (in module PYME.LMVis.visHelpers)
rendP() (in module PYME.Analysis.Colocalisation.colocScaleDep)
rendQT() (in module PYME.Analysis.points.QuadTree.QTrend)
(in module PYME.Analysis.points.QuadTree.rendQT)
rendQTa() (in module PYME.Analysis.points.QuadTree.QTrend)
(in module PYME.Analysis.points.QuadTree.rendQT)
rendQTan() (in module PYME.Analysis.points.QuadTree.QTrend)
(in module PYME.Analysis.points.QuadTree.rendQT)
rendQTe() (in module PYME.Analysis.points.QuadTree.QTrend)
(in module PYME.Analysis.points.QuadTree.rendQT)
rendS() (in module PYME.Analysis.Colocalisation.colocScaleDep)
rendSurfs() (in module PYME.Analysis.points.surfit)
rendSurfsT() (in module PYME.Analysis.points.surfit)
rendTri() (in module PYME.LMVis.visHelpers)
(in module PYME.LMVis.visHelpersMin)
rendTri2() (in module PYME.LMVis.visHelpers)
repair (PYME.recipes.surface_fitting.DualMarchingCubes attribute)
(PYME.recipes.surface_fitting.MarchingTetrahedra attribute)
replNoneWith1() (in module PYME.localization.FitFactories.fitCommon)
(in module PYME.localization.FitFactories.Gauss3DFitR)
(in module PYME.localization.FitFactories.SpecGaussFitFR)
(in module PYME.localization.FitFactories.SplitterMultifitSR)
(in module PYME.localization.FitFactories.SplitterObjFindR)
(in module PYME.localization.FitFactories.SplitterShiftEstFR)
report() (in module PYME.util.mProfile.mProfile)
(in module PYME.util.mProfile.p)
ReportForEachOutput (class in PYME.recipes.output)
ReportOutput (class in PYME.recipes.output)
request() (PYME.misc.pyme_zeroconf.PatchedServiceInfo method)
requiredVariables (PYME.LMVis.importTextDialog.ImportTextDialog attribute)
ResampleZ (class in PYME.recipes.processing)
reset() (PYME.misc.TiffImagePlugin.ImageFileDirectory method)
ResetDataStack() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
ResetSelection() (PYME.DSView.displayOptions.DisplayOpts method)
resident() (in module PYME.misc.memUsage)
resizeColumn() (PYME.contrib.listctrlMixins.ListCtrlAutoWidthMixin method)
resizeLastColumn() (PYME.contrib.listctrlMixins.ListCtrlAutoWidthMixin method)
resizePSF() (in module PYME.Deconv.wiener)
resolve() (PYME.misc.pyme_zeroconf.ZeroConfNS method)
resolveDependencies() (PYME.recipes.base.ModuleCollection method)
ResponseNotAllowed() (in module PYME.cluster.dataserver_wsgi)
ResponseNotFound() (in module PYME.cluster.dataserver_wsgi)
ResponseOK() (in module PYME.cluster.dataserver_wsgi)
result_params (PYME.localization.Test.fitTestJigSCMOS.fitTestJig attribute)
results (PYME.localization.Test.fitTestJigSCMOS.fitTestJig attribute)
ResultsFilter (class in PYME.IO.tabular)
resultsFilter() (in module PYME.IO.tabular)
ResultsView (class in PYME.DSView.modules.sheetView)
retrieve() (PYME.Deconv.tq_block_dec.blocking_deconv method)
RetrieveObjects() (PYME.DSView.modules.blobMeasure.Measurements method)
retrieveValue() (PYME.localization.MetaDataEdit.BoolFloatParam method)
(PYME.localization.MetaDataEdit.BoolParam method)
(PYME.localization.MetaDataEdit.ChoiceParam method)
(PYME.localization.MetaDataEdit.FilenameParam method)
(PYME.localization.MetaDataEdit.FloatListParam method)
(PYME.localization.MetaDataEdit.FloatParam method)
(PYME.localization.MetaDataEdit.IntParam method)
(PYME.localization.MetaDataEdit.RangeParam method)
(PYME.localization.MetaDataEdit.ShiftFieldParam method)
(PYME.localization.MetaDataEdit.StringParam method)
returnCompletedTask() (PYME.ParallelTasks.taskQueue.TaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
returnCompletedTasks() (PYME.ParallelTasks.taskQueue.TaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
reversal_swap() (in module PYME.Analysis.points.traveling_salesperson.sectioned_two_opt)
(in module PYME.localization.traveling_salesperson)
reversal_two_opt() (in module PYME.Analysis.points.traveling_salesperson.sectioned_two_opt)
(in module PYME.localization.traveling_salesperson)
reverseDependancyGraph() (PYME.recipes.base.ModuleCollection method)
rgb_to_hls() (in module PYME.misc.colorsys)
rgb_to_hsv() (in module PYME.misc.colorsys)
rgb_to_yiq() (in module PYME.misc.colorsys)
RGBImageOutput (class in PYME.recipes.output)
RichardsonLucyDeconvolution (class in PYME.Deconv.richardsonLucy)
right (PYME.recipes.measurement.BinnedHistogram attribute)
(PYME.recipes.measurement.Histogram attribute)
(PYME.recipes.measurement.ImageHistogram attribute)
ring() (in module PYME.Analysis.points.rings)
ring_corr() (in module PYME.Analysis.points.rings)
ring_corr_goal() (in module PYME.Analysis.points.rings)
ring_paint() (in module PYME.Analysis.points.rings)
ring_theory() (in module PYME.Analysis.points.rings)
ring_theory_cdf() (in module PYME.Analysis.points.rings)
RingCorrelator (class in PYME.DSView.modules.fourierRingCorrelation)
rlbead (class in PYME.Deconv.richardsonLucy)
(class in PYME.Deconv.richardsonLucyMV)
(class in PYME.Deconv.richardsonLucyMVM)
robustLin2Lhood() (in module PYME.Analysis.points.twoColour)
robustLin3Lhood() (in module PYME.Analysis.points.twoColour)
robustLin3zLhood() (in module PYME.Analysis.points.twoColour)
robustLinLhood() (in module PYME.Analysis.points.twoColour)
roi_at() (in module PYME.Analysis.angleFilter)
roi_list() (PYME.tileviewer.tileviewer.TileServer method)
roi_size_pixels (PYME.recipes.measurement.IdentifyOverlappingROIs attribute)
roiHalfSize (PYME.recipes.measurement.FitPoints attribute)
rootdir() (PYME.cluster.webdav.DirCollection method)
ROT90 (PYME.DSView.displayOptions.DisplayOpts attribute)
rough_knot_spacing (PYME.recipes.multiview.MapAstigZ attribute)
round_sf() (in module PYME.recipes.output)
Rp() (in module PYME.misc.snells)
Rs() (in module PYME.misc.snells)
Rule (class in PYME.cluster.ruleserver)
RuleServer (class in PYME.cluster.ruleserver)
run() (PYME.Acquire.ExecTools.GUIInitTask method)
(PYME.Deconv.decThread.decThread method)
(PYME.IO.testClusterSpooling.TestSpooler method)
(PYME.LMVis.Extras.animation.VideoPanel method)
(PYME.ParallelTasks.taskServerZC.TaskWatcher method)
(PYME.cluster.HTTPDataServer.statusPoller method)
(PYME.cluster.cluster_of_one.ClusterOfOne method)
(PYME.cluster.rulenodeserver.ServerThread method)
(PYME.cluster.ruleserver.ServerThread method)
(PYME.misc.wxThread.wxThread method)
(PYME.util.mProfile.tProfile.T method)
run_recipe_for_locations() (PYME.tileviewer.tileviewer.TileServer method)
run_t() (in module PYME.Analysis.points.SoftRend.testTetrahedra)
runRec() (in module PYME.recipes.batchProcess)
runRecipe() (in module PYME.recipes.runRecipe)
runTests() (in module PYME.Analysis.PSFEst.psfQuality)
(PYME.localization.Test.fitTestJig.fitTestJig method)
(PYME.localization.Test.fitTestJigSCMOS.fitTestJig method)
(PYME.localization.Test.fitTestJigWC.fitTestJig method)
(in module PYME.util.mProfile.tProfile)
rwlock2 (class in PYME.ParallelTasks.HDFTaskQueue)
S
SA (PYME.DSView.modules.blobMeasure.DataBlock attribute)
SampleInfoDialog (class in PYME.Acquire.sampleInformation)
samples_per_node (PYME.recipes.pointcloud.Octree attribute)
SarcomereChecker (class in PYME.Acquire.Utils.sarcSpacing)
satCheck() (PYME.Acquire.microscope.microscope method)
save() (PYME.Analysis.svmSegment.svmClassifier method)
(PYME.Analysis.Tracking.trackUtils.Clump method)
(PYME.Analysis.tile_pyramid.TileCache method)
(PYME.DSView.modules.graphViewPanel.MyNavigationToolbar method)
(PYME.DSView.modules.pupilView.MyNavigationToolbar method)
Save() (PYME.IO.image.ImageStack method)
save() (PYME.LMVis.Extras.animation.VideoPanel method)
(PYME.LMVis.tests.gl_test_objects.TestObject method)
(PYME.misc.TiffImagePlugin.ImageFileDirectory method)
(PYME.recipes.base.ModuleCollection method)
(PYME.recipes.output.CSVOutput method)
(PYME.recipes.output.HDFOutput method)
(PYME.recipes.output.ImageOutput method)
(PYME.recipes.output.RGBImageOutput method)
(PYME.recipes.output.ReportForEachOutput method)
(PYME.recipes.output.ReportOutput method)
(PYME.recipes.output.XLSOutput method)
save_as_png() (in module PYME.DSView.modules.arrayView)
save_attachments() (PYME.contrib.gohlke.czifile.CziFile method)
save_ply() (in module PYME.IO.FileUtils.ply)
save_stl() (PYME.DSView.modules.vis3D.visualiser method)
save_stl_binary() (in module PYME.IO.FileUtils.stl)
save_surface() (in module PYME.LMVis.Extras.extra_layers)
save_tile() (PYME.Analysis.tile_pyramid.NumpyTileIO method)
(PYME.Analysis.tile_pyramid.SqliteTileIO method)
(PYME.Analysis.tile_pyramid.TileIO method)
save_u3d() (PYME.DSView.modules.vis3D.visualiser method)
save_view() (PYME.LMVis.Extras.saved_views.ViewPanel method)
save_wisdom() (in module PYME.Deconv.fftwWisdom)
save_x3d() (PYME.DSView.modules.vis3D.visualiser method)
saveasmap() (in module PYME.localization.genmaps)
saveBlobs() (in module PYME.DSView.modules.extractBlobs)
saved (PYME.Analysis.tile_pyramid.CacheEntry attribute)
saveDataFrame() (in module PYME.recipes.runRecipe)
saveDeconvolution() (PYME.DSView.modules.deconvolution.deconvolver method)
saveFilter() (in module PYME.IO.FileUtils.h5rToTxt)
saveFits() (PYME.DSView.modules.blobFinding.blobFinder method)
SaveMetadata() (PYME.LMVis.Extras.sequentialSpecies.TimedSpecies method)
saveOutput() (in module PYME.recipes.runRecipe)
SavePerspective() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
savepickled() (in module PYME.misc.shellutils)
savePositions() (PYME.DSView.modules.blobFinding.blobFinder method)
saveResultsToFile() (PYME.localization.autopsf.autopsf.ZernikePSFModel method)
saveSelection() (in module PYME.misc.shellutils)
saveShiftmaps() (PYME.DSView.modules.blobFinding.blobFinder method)
saveTabular() (in module PYME.recipes.runRecipe)
saveTiffMultipage() (in module PYME.IO.FileUtils.saveTiffStack)
savitzky_golay() (in module PYME.misc.shellutils)
sc (PYME.Analysis.points.twoColour.lin3Model attribute)
(PYME.Analysis.points.twoColour.lin3zModel attribute)
Scale (class in PYME.recipes.base)
scale (PYME.DSView.arrayViewPanel.ArrayViewPanel attribute)
(PYME.recipes.base.Scale attribute)
(PYME.recipes.measurement.MultifitBlobs attribute)
scale() (PYME.LMVis.tests.gl_test_objects.TestObject method)
(PYME.LMVis.tests.gl_test_objects.TestObjectContainer method)
ScaleBoxPanel (class in PYME.LMVis.Extras.scaleBox)
scaling (PYME.recipes.output.RGBImageOutput attribute)
scaling_factor (PYME.recipes.output.RGBImageOutput attribute)
ScannerPanel (class in PYME.Acquire.ui.scanner_panel)
scatterdens() (in module PYME.LMVis.Extras.multiColourAnalysis)
(in module PYME.misc.shellutils)
scheme (PYME.recipes.base.OutputModule attribute)
schemes() (PYME.DSView.modules.blobMeasure.Measurements method)
schemes3D() (PYME.DSView.modules.blobMeasure.Measurements method)
Scroll() (PYME.DSView.scrolledImagePanel.ScrolledImagePanel method)
ScrolledImagePanel (class in PYME.DSView.scrolledImagePanel)
se_diff_l2_mean() (in module PYME.Analysis.BleachProfile.rollins)
search_radius_nm (PYME.recipes.multiview.CalibrateShifts attribute)
searchRadius (PYME.recipes.localisations.DBSCANClustering attribute)
secondaryAxis (PYME.DSView.modules.blobMeasure.DataBlock attribute)
seek() (PYME.misc.TiffImagePlugin.TiffImageFile method)
sefm() (in module PYME.Analysis.BleachProfile.rollins)
segment() (in module PYME.Analysis.points.EdgeDB.segment)
(PYME.Analysis.points.EdgeDB.edges.EdgeDB method)
(in module PYME.Analysis.points.gen3DTriangs)
SegmentationPanel (class in PYME.DSView.modules.segmentation)
segmenter (class in PYME.Analysis.points.segmentLL)
(class in PYME.DSView.modules.segmentation)
segmentNR() (in module PYME.Analysis.points.gen3DTriangs)
segments() (PYME.contrib.gohlke.czifile.CziFile method)
selectBeforePopup() (in module PYME.contrib.listctrlMixins)
selectCallback() (PYME.contrib.TextCtrlAutoComplete.test method)
selection (PYME.DSView.displayOptions.DisplayOpts attribute)
SELECTION_LINE (PYME.DSView.displayOptions.DisplayOpts attribute)
SELECTION_RECTANGLE (PYME.DSView.displayOptions.DisplayOpts attribute)
SELECTION_SQUIGLE (PYME.DSView.displayOptions.DisplayOpts attribute)
SelectionFilter (class in PYME.IO.tabular)
SelectLabel (class in PYME.recipes.processing)
SelectTableColumns (class in PYME.recipes.tablefilters)
Sellmeier() (in module PYME.misc.glassModel)
send_error() (PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler method)
send_head() (PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler method)
sendData() (PYME.cluster.webdav.DirCollection method)
(PYME.cluster.webdav.FileMember method)
seqPanel (class in PYME.Acquire.ui.seqdialog)
SeqProgressPanel (class in PYME.Acquire.ui.seqdialog)
series (PYME.contrib.gohlke.tifffile.TIFFfile attribute)
seriesName (PYME.Acquire.SpoolController.SpoolController attribute)
seriestiming() (in module PYME.misc.shellutils)
server_version (PYME.cluster.webdav.DAVRequestHandler attribute)
serverlog() (in module PYME.ParallelTasks.launchWorkers)
ServerThread (class in PYME.cluster.rulenodeserver)
(class in PYME.cluster.ruleserver)
set_cursor() (PYME.DSView.modules.graphViewPanel.MyNavigationToolbar method)
(PYME.DSView.modules.pupilView.MyNavigationToolbar method)
set_history_buttons() (PYME.DSView.modules.graphViewPanel.MyNavigationToolbar method)
(PYME.DSView.modules.pupilView.MyNavigationToolbar method)
set_lock_mode() (PYME.DSView.modules.annotation.Annotater method)
set_message() (PYME.DSView.modules.graphViewPanel.MyNavigationToolbar method)
(PYME.DSView.modules.pupilView.MyNavigationToolbar method)
set_roi_locations() (PYME.tileviewer.tileviewer.TileServer method)
set_status_bar() (PYME.DSView.modules.graphViewPanel.MyNavigationToolbar method)
(PYME.DSView.modules.pupilView.MyNavigationToolbar method)
set_tile_source() (PYME.tileviewer.tileviewer.TileServer method)
set_variables() (PYME.IO.tabular.MappingFilter method)
set_view() (PYME.LMVis.Extras.saved_views.ViewPanel method)
set_view_x() (PYME.LMVis.Extras.saved_views.ViewPanel method)
set_view_y() (PYME.LMVis.Extras.saved_views.ViewPanel method)
set_view_z() (PYME.LMVis.Extras.saved_views.ViewPanel method)
setarray() (PYME.misc.editgrid.EditGrid method)
SetAspect() (PYME.DSView.displayOptions.DisplayOpts method)
SetBackend() (PYME.Analysis.processLogger.ContextManager method)
setBackgroundBufferPCT() (PYME.IO.DataSources.BGSDataSource.DataSource method)
SetCameraShutter() (in module PYME.Acquire.protocol)
SetCaption() (PYME.ui.manualFoldPanel.CaptionBar method)
(PYME.ui.manualFoldPanel.foldingPane method)
SetCentredRoi() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
SetCharts() (PYME.DSView.eventLogViewer.eventLogPanel method)
(PYME.DSView.eventLogViewer.eventLogTPanel method)
SetChoices() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
SetCMap() (PYME.DSView.displayOptions.DisplayOpts method)
SetColor() (PYME.contrib.wxPlotPanel.PlotPanel method)
setColour() (PYME.IO.tabular.ColourFilter method)
SetColumnCount() (PYME.contrib.listctrlMixins.ColumnSorterMixin method)
SetContinuousMode() (in module PYME.Acquire.protocol)
setCreatorChoices() (PYME.Acquire.sampleInformation.SampleInfoDialog method)
SetData() (PYME.IO.image.ImageStack method)
(PYME.LMVis.pipelineView.PipelineTableGrid method)
(PYME.ui.fastGraph.FastGraphPanel method)
(PYME.ui.histLimits.HistLimitPanel method)
(PYME.ui.recArrayView.RecarrayTableGrid method)
SetDataStack() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.DSView.displayOptions.DisplayOpts method)
setDefaultNamespace() (in module PYME.Acquire.ExecTools)
SetDirection() (PYME.Acquire.stackSettings.StackSettings method)
setdriftparsFromImg() (in module PYME.misc.shellutils)
setDyeChoices() (PYME.Acquire.sampleInformation.SampleInfoDialog method)
setDynamicChoices() (PYME.contrib.TextCtrlAutoComplete.test method)
SetEMGain() (in module PYME.Acquire.protocol)
SetEndPos() (PYME.Acquire.stackSettings.StackSettings method)
setEntry() (PYME.Acquire.HTTPHDFSpooler.HttpSpoolMDHandler method)
(PYME.IO.MetaDataHandler.CachingMDHandler method)
(PYME.IO.MetaDataHandler.HDFMDHandler method)
(PYME.IO.MetaDataHandler.MDHandlerBase method)
(PYME.IO.MetaDataHandler.NestedClassMDHandler method)
(PYME.IO.MetaDataHandler.QueueMDHandler method)
(PYME.IO.MetaDataHandler.XMLMDHandler method)
SetEntryCallback() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
setEventNumbers() (PYME.LMVis.filterPane.FilterPane method)
SetEventSource() (PYME.DSView.eventLogViewer.eventLogPanel method)
(PYME.DSView.eventLogViewer.eventLogTPanel method)
SetFilter() (PYME.Acquire.sampleInformation.VirtList method)
SetFitResults() (PYME.DSView.fitInfo.fitDispPanel method)
SetFolded() (PYME.ui.autoFoldPanel.foldButton method)
(PYME.ui.manualFoldPanel.foldButton method)
setfromstring() (PYME.misc.editgrid.EditGrid method)
SetGain() (PYME.DSView.displayOptions.DisplayOpts method)
SetHighlightColor() (PYME.contrib.listctrlMixins.ListRowHighlighter method)
SetHighlightMode() (PYME.contrib.listctrlMixins.ListRowHighlighter method)
SetIntegTime() (in module PYME.Acquire.protocol)
setItem() (PYME.Acquire.microscope.StateManager method)
setItems() (PYME.Acquire.microscope.StateManager method)
setMapping() (PYME.IO.tabular.MappingFilter method)
(PYME.LMVis.Extras.QPobjectSegment.QPObjectSegmenter method)
SetMaster() (PYME.DSView.modules.composite.CompositeDialog method)
SetMatchFunction() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
SetMessage() (PYME.Acquire.ui.splashScreen.SplashScreen method)
(PYME.DSView.splashScreen.SplashScreen method)
SetMinMax() (PYME.ui.histLimits.HistLimitPanel method)
SetMultipleChoices() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
SetOffset() (PYME.DSView.displayOptions.DisplayOpts method)
SetOrientation() (PYME.DSView.displayOptions.DisplayOpts method)
SetPattern() (PYME.Acquire.Utils.MultiPointScanner.PointScanner method)
SetPercentile() (PYME.ui.histLimits.HistLimitPanel method)
setPopFcn() (PYME.ParallelTasks.taskQueue.TaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
setPopupMenu() (PYME.contrib.listctrlMixins.ListCtrlSelectionManagerMix method)
SetPos() (PYME.Acquire.microscope.microscope method)
SetPrevPos() (PYME.Acquire.stackSettings.StackSettings method)
SetPropagate() (PYME.Acquire.ui.AnalysisSettingsUI.AnalysisSettings method)
SetProtocol() (PYME.Acquire.SpoolController.SpoolController method)
setQueueData() (PYME.ParallelTasks.taskQueue.TaskQueueWithData method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
setQueueMetaData() (PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.HDFTaskQueue.HDFTaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
setQueueMetaDataEntries() (PYME.ParallelTasks.HDFTaskQueue.HDFResultsTaskQueue method)
(PYME.ParallelTasks.HDFTaskQueue.HDFTaskQueue method)
(PYME.ParallelTasks.taskServerZC.TaskQueueSet method)
SetRange() (PYME.DSView.eventLogViewer.eventLogPanel method)
(PYME.DSView.eventLogViewer.eventLogTPanel method)
SetRecipe() (PYME.recipes.vertical_recipe_display.RecipeDisplayPanel method)
setResizeColumn() (PYME.contrib.listctrlMixins.ListCtrlAutoWidthMixin method)
SetResults() (PYME.DSView.fitInfo.FitInfoPanel method)
setResults() (PYME.IO.tabular.FitResultsSource method)
SetScale() (PYME.DSView.displayOptions.DisplayOpts method)
SetScanChannel() (PYME.Acquire.stackSettings.StackSettings method)
SetSelectCallback() (PYME.contrib.TextCtrlAutoComplete.TextCtrlAutoComplete method)
SetSelection() (PYME.DSView.displayOptions.DisplayOpts method)
setSelectionFromFilterKeys() (in module PYME.misc.shellutils)
SetSeqLength() (PYME.Acquire.stackSettings.StackSettings method)
SetShiftField() (PYME.IO.DataSources.UnsplitDataSource.DataSource method)
SetShiftmap() (PYME.DSView.modules.composite.ImageList method)
SetShifts() (PYME.IO.DataSources.AlignDataSource.DataSource method)
SetSlice() (PYME.DSView.displayOptions.DisplayOpts method)
setSlideChoices() (PYME.Acquire.sampleInformation.SampleInfoDialog method)
SetSpoolDir() (PYME.Acquire.SpoolController.SpoolController method)
SetSpoolMethod() (PYME.Acquire.SpoolController.SpoolController method)
SetStartMode() (PYME.Acquire.stackSettings.StackSettings method)
SetStartPos() (PYME.Acquire.stackSettings.StackSettings method)
setStatus() (PYME.LMVis.statusLog.StatusLogger method)
SetStatusDispFcn() (in module PYME.LMVis.statusLog)
SetStepSize() (PYME.Acquire.stackSettings.StackSettings method)
setStructureChoices() (PYME.Acquire.sampleInformation.SampleInfoDialog method)
SetThresholdMode() (PYME.ui.histLimits.HistLimitPanel method)
SetTimedSpecies() (PYME.LMVis.Extras.sequentialSpecies.TimedSpecies method)
setup_logging() (in module PYME.Acquire.PYMEAcquire)
setValue() (PYME.Acquire.microscope.StateHandler method)
SetValue() (PYME.LMVis.pipelineView.PipelineTable method)
(PYME.ui.histLimits.HistLimitPanel method)
(PYME.ui.recArrayView.RecArrayTable method)
SetValueAndFire() (PYME.ui.histLimits.HistLimitPanel method)
SetVirtualSize() (PYME.DSView.scrolledImagePanel.ScrolledImagePanel method)
SetVoxelSize() (PYME.Acquire.microscope.microscope method)
sffake (class in PYME.Analysis.points.twoColour)
(class in PYME.misc.sffake)
ShaderLoader (class in PYME.LMVis.shader_programs.shader_loader)
ShaderProgramFactory (class in PYME.LMVis.shader_programs.ShaderProgramFactory)
shape (PYME.contrib.gohlke.czifile.CziFile attribute)
(PYME.DSView.modules.composite.CompositeDialog attribute)
(PYME.IO.DataSources.BaseDataSource.BaseDataSource attribute)
(PYME.IO.DataSources.BaseDataSource.XYZTCDataSource attribute)
ShellManager (class in PYME.LMVis.Extras.spherical_harmonics)
shift_and_rot_model() (in module PYME.Analysis.points.twoColour)
shift_and_rot_model_eval() (in module PYME.Analysis.points.twoColour)
shift_map_path (PYME.recipes.multiview.ShiftCorrect attribute)
ShiftCorrect (class in PYME.recipes.multiview)
ShiftFieldParam (class in PYME.localization.MetaDataEdit)
ShiftItem() (PYME.DSView.modules.composite.ImageList method)
ShiftmapGenerator (class in PYME.LMVis.Extras.shiftmapGenerator)
ShiftmapSelectionDialog (class in PYME.DSView.modules.composite)
shiftModel (class in PYME.Analysis.points.twoColour)
ShiftPanel (class in PYME.DSView.modules.composite)
shmarray (class in PYME.util.shmarray.shmarray)
shortAxisDist() (PYME.DSView.modules.blobMeasure.BlobObject method)
show (PYME.ui.manualFoldPanel.CaptionButton attribute)
Show() (PYME.DSView.displayOptions.DisplayOpts method)
show() (PYME.LMVis.Extras.dockedPanel.DockedPanel static method)
show_box() (PYME.LMVis.Extras.scaleBox.ScaleBoxPanel method)
show_shortcuts() (in module PYME.LMVis.Extras.showShortcuts)
ShowDataGrid() (in module PYME.misc.editgrid)
ShowHistLimitFrame() (in module PYME.ui.histLimits)
ShowOpts() (PYME.DSView.arrayViewPanel.ArraySettingsAndViewPanel method)
ShowPreflightResults() (in module PYME.Acquire.ui.preflight)
ShowShortcuts (class in PYME.LMVis.Extras.showShortcuts)
shuffle() (PYME.LMVis.tests.gl_test_objects.GridContainer method)
shutdown() (PYME.cluster.cluster_of_one.ClusterOfOne method)
(PYME.cluster.rulenodeserver.ServerThread method)
(PYME.cluster.ruleserver.ServerThread method)
sigma2s (PYME.recipes.filters.DoGFilter attribute)
sigma2X (PYME.recipes.filters.DoGFilter attribute)
sigma2Y (PYME.recipes.filters.DoGFilter attribute)
sigma2Z (PYME.recipes.filters.DoGFilter attribute)
sigmas (PYME.recipes.filters.DespeckleFilter attribute)
(PYME.recipes.filters.DoGFilter attribute)
(PYME.recipes.filters.GaussianFilter attribute)
(PYME.recipes.filters.MaxFilter attribute)
(PYME.recipes.filters.MeanFilter attribute)
(PYME.recipes.filters.MedianFilter attribute)
sigmaX (PYME.recipes.filters.DoGFilter attribute)
(PYME.recipes.filters.GaussianFilter attribute)
sigmaY (PYME.recipes.filters.DoGFilter attribute)
(PYME.recipes.filters.GaussianFilter attribute)
sigmaZ (PYME.recipes.filters.DoGFilter attribute)
(PYME.recipes.filters.GaussianFilter attribute)
signalFraction() (in module PYME.Analysis.thresholding)
sim_params (PYME.localization.Test.fitTestJigSCMOS.fitTestJig attribute)
sim_pic() (PYME.Analysis.PSFEst.dec.dec method)
(PYME.Deconv.dec.ICTMDeconvolution method)
SimpleMDHandler (class in PYME.IO.MetaDataHandler)
SimpleThreshold (class in PYME.recipes.processing)
simplify_catalog() (in module PYME.misc.read_agf)
Single() (PYME.Acquire.zScanner.zScanner method)
size (PYME.IO.clusterListing.FileInfo attribute)
(PYME.ui.manualFoldPanel.CaptionButton attribute)
size_x() (in module PYME.Analysis.PSFEst.psfQuality)
sizeC (PYME.IO.DataSources.BaseDataSource.BaseDataSource attribute)
SizeReportCtrl (class in PYME.ui.autoFoldPanel)
(class in PYME.ui.manualFoldPanel)
sizeX (PYME.DSView.modules.pupilTools.PupilTools attribute)
(PYME.recipes.filters.DespeckleFilter attribute)
(PYME.recipes.filters.MaxFilter attribute)
(PYME.recipes.filters.MeanFilter attribute)
(PYME.recipes.filters.MedianFilter attribute)
sizeY (PYME.recipes.filters.DespeckleFilter attribute)
(PYME.recipes.filters.MaxFilter attribute)
(PYME.recipes.filters.MeanFilter attribute)
(PYME.recipes.filters.MedianFilter attribute)
sizeZ (PYME.DSView.modules.pupilTools.PupilTools attribute)
(PYME.recipes.filters.DespeckleFilter attribute)
(PYME.recipes.filters.MaxFilter attribute)
(PYME.recipes.filters.MeanFilter attribute)
(PYME.recipes.filters.MedianFilter attribute)
SLICE_XY (PYME.DSView.displayOptions.DisplayOpts attribute)
SLICE_XZ (PYME.DSView.displayOptions.DisplayOpts attribute)
SLICE_YZ (PYME.DSView.displayOptions.DisplayOpts attribute)
sliceChoices (PYME.DSView.DisplayOptionsPanel.OptionsPanel attribute)
sliceSize (PYME.IO.image.ImageStack attribute)
slidePanel (class in PYME.Acquire.sampleInformation)
snake_refine_trace() (PYME.DSView.modules.annotation.Annotater method)
snr_threshold (PYME.recipes.measurement.DetectPoints2D attribute)
softRender (PYME.recipes.localisations.DensityMapping attribute)
sorted_selection (PYME.DSView.displayOptions.DisplayOpts attribute)
SortListItems() (PYME.contrib.listctrlMixins.ColumnSorterMixin method)
SpatialConvolutionMapping (class in PYME.Deconv.dec)
specAddDialog (class in PYME.LMVis.colourPanel)
SpecFromMetadata() (PYME.LMVis.colourPanel.colourPanel method)
SpecGraphPanel (class in PYME.ui.fastGraph)
species_dyes (PYME.recipes.localisations.ProcessColour attribute)
species_ratios (PYME.recipes.localisations.ProcessColour attribute)
SpeciesDialog (class in PYME.LMVis.Extras.sequentialSpecies)
speckleFilename (PYME.recipes.tracking.LoadSpeckles attribute)
sph2cart() (in module PYME.Analysis.points.spherical_harmonics)
sphere_expansion() (in module PYME.Analysis.points.spherical_harmonics)
sphere_expansion_clean() (in module PYME.Analysis.points.spherical_harmonics)
SphericalHarmonicShell (class in PYME.recipes.localisations)
SplashPanel (class in PYME.Acquire.ui.splashScreen)
(class in PYME.DSView.splashScreen)
SplashScreen (class in PYME.Acquire.ui.splashScreen)
(class in PYME.DSView.splashScreen)
split_cluster_url() (in module PYME.IO.unifiedIO)
split_image() (in module PYME.localization.splitting)
split_path() (PYME.cluster.webdav.DAVRequestHandler method)
split_points_by_grid() (in module PYME.Analysis.points.traveling_salesperson.sectioned_two_opt)
split_points_kmeans() (in module PYME.Analysis.points.traveling_salesperson.sectioned_two_opt)
splitattrs() (in module PYME.cluster.webdav)
splWrap() (in module PYME.localization.FitFactories.SplitterFitFNR)
(in module PYME.localization.FitFactories.SplitterFitFusionR)
SpoolController (class in PYME.Acquire.SpoolController)
spoolData() (PYME.IO.clusterExport.ImageFrameSource method)
Spooler (class in PYME.Acquire.HDFSpooler)
(class in PYME.Acquire.HTTPHDFSpooler)
(class in PYME.Acquire.HTTPSpooler)
(class in PYME.Acquire.QueueSpooler)
(class in PYME.Acquire.Spooler)
spoolImageFromFile() (PYME.IO.clusterExport.ImageFrameSource method)
SpoolStopped() (PYME.Acquire.SpoolController.SpoolController method)
SqliteTileIO (class in PYME.Analysis.tile_pyramid)
squiggle (class in PYME.DSView.modules.squiggleTools)
StackSettings (class in PYME.Acquire.stackSettings)
stacksize() (in module PYME.misc.memUsage)
start (PYME.contrib.gohlke.czifile.CziFile attribute)
start() (PYME.Acquire.frameWrangler.FrameWrangler method)
(PYME.Acquire.Utils.MultiPointScanner.PointScanner method)
(PYME.Acquire.Utils.pointScanner.PointScanner method)
(PYME.Acquire.Utils.pointScanner.PointScanner3D method)
(PYME.Acquire.Utils.strip_tiler.StripTiler method)
(PYME.Acquire.Utils.tiler.Tiler method)
Start() (PYME.Acquire.zScanner.zScanner method)
START_AND_END (PYME.Acquire.stackSettings.StackSettings attribute)
start_frame (PYME.recipes.processing.CaWave attribute)
start_from_corner (PYME.recipes.measurement.TravelingSalesperson attribute)
startDuplicator() (in module PYME.IO.clusterDuplication)
startEstROI() (in module PYME.localization.autopsf.roifit)
startFrameWrangler() (PYME.Acquire.microscope.microscope method)
startGuess() (PYME.Deconv.dec.ICTMDeconvolution method)
(PYME.Deconv.richardsonLucy.RichardsonLucyDeconvolution method)
startParams (PYME.recipes.tracking.FitFusionTraces attribute)
StartSelection() (PYME.DSView.arrayViewPanel.ArrayViewPanel method)
(PYME.LMVis.imageView.ImageViewPanel method)
(PYME.LMVis.imageView2.ImageViewPanel method)
StartServing() (in module PYME.DSView.htmlServe)
(PYME.DSView.modules.blobMeasure.Measurements method)
StartSpool() (PYME.Acquire.HTTPSpooler.Spooler method)
(PYME.Acquire.Spooler.Spooler method)
StartSpooling() (PYME.Acquire.SpoolController.SpoolController method)
stat() (in module PYME.IO.clusterIO)
StateHandler (class in PYME.Acquire.microscope)
StateManager (class in PYME.Acquire.microscope)
StatisticsByFrame (class in PYME.recipes.processing)
StatusBarUpdate() (PYME.Acquire.acquiremainframe.PYMEMainFrame method)
StatusLogger (class in PYME.LMVis.statusLog)
statusPoller (class in PYME.cluster.HTTPDataServer)
step (PYME.recipes.localisations.AutocorrelationDriftCorrection attribute)
step_size (PYME.recipes.machine_learning.CNNFilter attribute)
stepSize (PYME.recipes.localisations.ClusterCountVsImagingTime attribute)
stokesEinstein() (in module PYME.Analysis.Tracking.msd)
stop() (PYME.Acquire.frameWrangler.FrameWrangler method)
(PYME.Acquire.Utils.MultiPointScanner.PointScanner method)
(PYME.Acquire.Utils.pointScanner.PointScanner method)
(PYME.Acquire.Utils.pointScanner.PointScanner3D method)
Stop() (PYME.Acquire.zScanner.zScanner method)
stop() (PYME.cluster.HTTPDataServer.statusPoller method)
(PYME.cluster.rulenodeserver.NodeServer method)
(PYME.cluster.ruleserver.RuleServer method)
stopDuplicator() (in module PYME.IO.clusterDuplication)
StopSpool() (PYME.Acquire.HDFSpooler.Spooler method)
(PYME.Acquire.HTTPHDFSpooler.Spooler method)
(PYME.Acquire.HTTPSpooler.Spooler method)
(PYME.Acquire.Spooler.Spooler method)
StopSpooling() (PYME.Acquire.SpoolController.SpoolController method)
Str (in module PYME.misc.mock_traits)
StringParam (class in PYME.localization.MetaDataEdit)
StripTiler (class in PYME.Acquire.Utils.strip_tiler)
stylesheet (PYME.util.mProfile.colorize_db_t.Parser attribute)
subblock_directory (PYME.contrib.gohlke.czifile.CziFile attribute)
subblocks() (PYME.contrib.gohlke.czifile.CziFile method)
subsampidx() (in module PYME.LMVis.Extras.multiColourAnalysis)
(in module PYME.misc.shellutils)
subsearch() (PYME.Analysis.PSFEst.dec.dec method)
(PYME.Deconv.dec.ICTMDeconvolution method)
Subtract (class in PYME.recipes.base)
suffix1 (PYME.recipes.tablefilters.AggregateMeasurements attribute)
suffix2 (PYME.recipes.tablefilters.AggregateMeasurements attribute)
suffix3 (PYME.recipes.tablefilters.AggregateMeasurements attribute)
suffix4 (PYME.recipes.tablefilters.AggregateMeasurements attribute)
suggest_cluster_filename() (in module PYME.IO.clusterExport)
sum (PYME.DSView.modules.blobMeasure.DataBlock attribute)
supportRadius (PYME.recipes.processing.OpticalFlow attribute)
Surface (class in PYME.misc.zemax)
SurfaceFitter (class in PYME.LMVis.Extras.surface_fitting)
svm_segment() (PYME.DSView.modules.annotation.Annotater method)
svmClassifier (class in PYME.Analysis.svmSegment)
svmSegment (class in PYME.recipes.machine_learning)
syncer (class in PYME.DSView.modules.synchronise)
Synchronise() (PYME.DSView.displayOptions.DisplayOpts method)
T
T (class in PYME.util.mProfile.tProfile)
(in module PYME.Acquire.protocol)
t1() (in module PYME.util.mProfile.tProfile)
TablesBackend (class in PYME.Analysis.processLogger)
TabularBase (class in PYME.IO.tabular)
Tag (class in PYME.cluster.webdav)
Tag() (PYME.Acquire.positionTracker.PositionTracker method)
Task (class in PYME.ParallelTasks.taskDef)
task_advertisements() (PYME.cluster.ruleserver.RuleServer method)
TASK_DONE (PYME.Acquire.ExecTools.BGInitTask attribute)
TASK_FAILED (PYME.Acquire.ExecTools.BGInitTask attribute)
TASK_INFO_DTYPE (PYME.cluster.ruleserver.IntegerIDRule attribute)
TASK_RUNNING (PYME.Acquire.ExecTools.BGInitTask attribute)
TaskError (class in PYME.cluster.taskWorkerHTTP)
TaskListProtocol (class in PYME.Acquire.protocol)
TaskListTask (class in PYME.Acquire.protocol)
TaskQueue (class in PYME.ParallelTasks.taskQueue)
TaskQueueSet (class in PYME.ParallelTasks.taskServerZC)
TaskQueueWithData (class in PYME.ParallelTasks.taskQueue)
TaskResult (class in PYME.ParallelTasks.taskDef)
TaskWatcher (class in PYME.ParallelTasks.taskServerZC)
taskWorker (class in PYME.cluster.taskWorkerHTTP)
te() (in module PYME.util.mProfile.mProfile)
(in module PYME.util.mProfile.p)
tell() (PYME.misc.TiffImagePlugin.TiffImageFile method)
TempDirCollection (class in PYME.cluster.webdav)
template (PYME.cluster.taskWorkerHTTP.TaskError attribute)
(PYME.recipes.output.ReportForEachOutput attribute)
(PYME.recipes.output.ReportOutput attribute)
template_fill() (in module PYME.cluster.rulenodeserver)
temporalFilter (PYME.recipes.localisations.FiducialCorrection attribute)
temporalFilterScale (PYME.recipes.localisations.FiducialCorrection attribute)
TempPlotter (class in PYME.LMVis.Extras.temperaturePlot)
tertiaryAxis (PYME.DSView.modules.blobMeasure.DataBlock attribute)
Tesselation (class in PYME.recipes.pointcloud)
test (class in PYME.contrib.TextCtrlAutoComplete)
test() (in module PYME.Analysis.points.EdgeDB.edgeTest)
(in module PYME.contrib.pad)
(in module PYME.util.shmarray.shmTest)
test_function() (in module PYME.util.mProfile.tProfile)
test_method() (PYME.util.mProfile.tProfile.T method)
test_ps_app() (in module PYME.Analysis.PSFGen.test_ps_app)
testObj() (in module PYME.Analysis.points.gen3DTriangs)
TestObject (class in PYME.LMVis.tests.gl_test_objects)
TestObjectContainer (class in PYME.LMVis.tests.gl_test_objects)
TestObjectEncoder (class in PYME.LMVis.tests.gl_test_objects)
testPattern() (in module PYME.simulation.locify)
TestSpooler (class in PYME.IO.testClusterSpooling)
TextCtrlAutoComplete (class in PYME.contrib.TextCtrlAutoComplete)
TextEditMixin (class in PYME.contrib.listctrlMixins)
(class in PYME.ui.MetadataTree)
TextFileHeaderParse() (PYME.LMVis.importTextDialog.ImportTextDialog method)
TextfileSource (class in PYME.IO.tabular)
textfileSource() (in module PYME.IO.tabular)
tfoef() (in module PYME.Analysis.BleachProfile.rollins)
tformat() (PYME.IO.MetaDataHandler.MDHandlerBase static method)
th() (in module PYME.Analysis.angleFilter)
th2() (in module PYME.Analysis.angleFilter)
Theta (PYME.DSView.modules.blobMeasure.DataBlock attribute)
theta_t() (in module PYME.misc.snells)
thiolInt() (in module PYME.Analysis.BleachProfile.deMod)
thread_profiler (class in PYME.util.fProfile.fProfile)
threaded (PYME.recipes.measurement.PairwiseDistanceHistogram attribute)
ThreadedHTTPServer (class in PYME.cluster.HTTPDataServer)
three_d (PYME.recipes.pointcloud.DelaunayTesselation attribute)
(PYME.recipes.pointcloud.LocalPointDensity attribute)
Threshold (class in PYME.recipes.processing)
threshold (PYME.recipes.measurement.DetectPoints2D attribute)
(PYME.recipes.measurement.MultifitBlobs attribute)
(PYME.recipes.processing.LocalMaxima attribute)
(PYME.recipes.processing.SimpleThreshold attribute)
threshold_density (PYME.recipes.surface_fitting.DualMarchingCubes attribute)
(PYME.recipes.surface_fitting.MarchingTetrahedra attribute)
thresholdedManders() (in module PYME.Analysis.Colocalisation.correlationCoeffs)
thresholds (PYME.DSView.displayOptions.DisplayOpts attribute)
Tick() (PYME.Acquire.ActionManager.ActionManager method)
(PYME.Acquire.positionTracker.PositionTracker method)
(PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
(PYME.Acquire.ui.seqdialog.SeqProgressPanel method)
(PYME.Acquire.ui.splashScreen.SplashScreen method)
tick() (PYME.Acquire.Utils.MultiPointScanner.PointScanner method)
(PYME.Acquire.Utils.pointScanner.PointScanner method)
(PYME.Acquire.Utils.pointScanner.PointScanner3D method)
(PYME.Acquire.Utils.tiler.Tiler method)
Tick() (PYME.Deconv.deconvDialogs.DeconvProgressDialog method)
(PYME.DSView.modules.segmentation.SegmentationPanel method)
(PYME.DSView.splashScreen.SplashScreen method)
(PYME.Deconv.deconvDialogs.DeconvProgressPanel method)
TIFFfile (class in PYME.contrib.gohlke.tifffile)
TiffImageFile (class in PYME.misc.TiffImagePlugin)
TiffMP (class in PYME.IO.FileUtils.saveTiffStack)
TiffSeriesExporter (class in PYME.IO.dataExporter)
TiffStackExporter (class in PYME.IO.dataExporter)
tile() (in module PYME.Analysis.deTile)
tile_coords (PYME.IO.DataSources.SupertileDatasource.DataSource attribute)
tile_coords_um (PYME.IO.DataSources.SupertileDatasource.DataSource attribute)
tile_exists() (PYME.Analysis.tile_pyramid.NumpyTileIO method)
(PYME.Analysis.tile_pyramid.SqliteTileIO method)
(PYME.Analysis.tile_pyramid.TileIO method)
tile_pyramid() (in module PYME.Analysis.tile_pyramid)
TileCache (class in PYME.Analysis.tile_pyramid)
TileIO (class in PYME.Analysis.tile_pyramid)
TilePanel (class in PYME.Acquire.ui.tile_panel)
TilePhysicalCoords (class in PYME.recipes.measurement)
Tiler (class in PYME.Acquire.Utils.tiler)
tiler (class in PYME.DSView.modules.tiling)
TileServer (class in PYME.tileviewer.tileviewer)
time_block_subset() (in module PYME.LMVis.Extras.subsets)
time_gap_tolerance (PYME.recipes.multiview.FindClumps attribute)
TimeBlocks (class in PYME.recipes.localisations)
TimedSpecies (class in PYME.LMVis.Extras.sequentialSpecies)
timeout (PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler attribute)
timeout_two_opt() (in module PYME.Analysis.points.traveling_salesperson.two_opt)
timeoutTesting (PYME.cluster.HTTPDataServer.PYMEHTTPRequestHandler attribute)
timeToFrames() (in module PYME.Analysis.piecewiseMapping)
timeWindow (PYME.recipes.localisations.FiducialCorrection attribute)
(PYME.recipes.processing.WavefrontVelocity attribute)
(PYME.recipes.tracking.FindClumps attribute)
TiSettings (class in PYME.misc.TiSettings)
to_bytes() (in module PYME.IO.clusterIO)
to_hdf() (PYME.IO.ragged.RaggedBase method)
(PYME.IO.tabular.TabularBase method)
to_JSON() (PYME.Acquire.HTTPSpooler.EventLogger method)
(PYME.Analysis.points.twoColour.shiftModel method)
(PYME.IO.MetaDataHandler.MDHandlerBase method)
to_json() (PYME.IO.ragged.RaggedBase method)
(PYME.LMVis.tests.gl_test_objects.Clusterizer method)
(PYME.LMVis.tests.gl_test_objects.Ellipsoid method)
(PYME.LMVis.tests.gl_test_objects.ExponentialClusterizer method)
(PYME.LMVis.tests.gl_test_objects.GridContainer method)
(PYME.LMVis.tests.gl_test_objects.HarmonicCellBackground method)
(PYME.LMVis.tests.gl_test_objects.NoisePlane method)
(PYME.LMVis.tests.gl_test_objects.TestObject method)
(PYME.LMVis.tests.gl_test_objects.Vesicle method)
(PYME.LMVis.tests.gl_test_objects.Worm method)
(PYME.LMVis.views.VideoView method)
(PYME.LMVis.views.View method)
to_pyoptic() (PYME.misc.zemax.ZMX method)
to_recarray() (PYME.IO.tabular.TabularBase method)
to_string() (PYME.cluster.taskWorkerHTTP.TaskError method)
to_svg() (in module PYME.recipes.recipeLayout)
(PYME.recipes.base.ModuleCollection method)
toarray() (PYME.misc.editgrid.EditGrid method)
toDataFrame() (PYME.IO.tabular.TabularBase method)
toggle_roi() (PYME.tileviewer.tileviewer.TileServer method)
ToggleFold() (PYME.ui.manualFoldPanel.foldingPane method)
ToggleItem() (PYME.contrib.listctrlMixins.CheckListCtrlMixin method)
TogglePin() (PYME.ui.autoFoldPanel.foldingPane method)
(PYME.ui.manualFoldPanel.foldingPane method)
toJSON() (PYME.recipes.base.ModuleCollection method)
toPyOptic() (PYME.misc.zemax.ZMX method)
tostring() (PYME.misc.editgrid.EditGrid method)
total_nglasses() (in module PYME.misc.read_agf)
toXls() (PYME.DSView.modules.blobMeasure.Measurements method)
toYAML() (PYME.recipes.base.ModuleCollection method)
Tp() (in module PYME.misc.snells)
tqPopFcn() (in module PYME.localization.remFitBuf)
traceModel() (in module PYME.Analysis.BleachProfile.intensProf)
traceModelDE() (in module PYME.Analysis.BleachProfile.intensProf)
traceModelDE1() (in module PYME.Analysis.BleachProfile.intensProf)
Track (class in PYME.Analysis.Tracking.trackUtils)
Track() (PYME.recipes.tracking.TrackFeatures method)
TrackDisplay (class in PYME.DSView.overlays)
Tracker (class in PYME.Analysis.Tracking.tracking)
TrackerPanel (class in PYME.Acquire.positionTracker)
TrackerPlotPanel (class in PYME.Acquire.positionTracker)
TrackFeatures (class in PYME.recipes.tracking)
TrackManager (class in PYME.Analysis.Tracking.trackUtils)
trackser() (in module PYME.misc.shellutils)
TrackWithPipeline() (PYME.recipes.tracking.TrackFeatures method)
train() (PYME.Analysis.svmSegment.svmClassifier method)
train_naive_bayes() (PYME.DSView.modules.annotation.Annotater method)
train_svm() (PYME.DSView.modules.annotation.Annotater method)
trainAndClassify() (PYME.Analysis.svmSegment.svmClassifier method)
trainClassifier() (in module PYME.Analysis.svmSegment)
trait_view() (PYME.recipes.base.ModuleBase method)
trajectory (PYME.Analysis.Tracking.trackUtils.Track attribute)
translate() (PYME.LMVis.tests.gl_test_objects.TestObject method)
(PYME.LMVis.tests.gl_test_objects.TestObjectContainer method)
translate_path() (PYME.cluster.dataserver_wsgi.dataserver method)
translateSeparators() (in module PYME.IO.FileUtils.nameUtils)
TravelingSalesperson (class in PYME.recipes.measurement)
Triangle3DRenderer (class in PYME.LMVis.renderers)
TriangleRenderer (class in PYME.LMVis.renderers)
TriangleRendererW (class in PYME.LMVis.renderers)
trianglesEqual() (in module PYME.Analysis.points.gen3DTriangs)
Ts() (in module PYME.misc.snells)
tsoef() (in module PYME.Analysis.BleachProfile.rollins)
tsp_chunk_two_opt_multiproc() (in module PYME.Analysis.points.traveling_salesperson.sectioned_two_opt)
(in module PYME.localization.traveling_salesperson)
tsp_sort() (in module PYME.Analysis.points.traveling_salesperson.sort)
ttest_ind() (in module PYME.Analysis.points.moments)
turnAllLasersOff() (PYME.Acquire.microscope.microscope method)
twistCal() (in module PYME.localization.twist)
two_opt() (in module PYME.Analysis.points.traveling_salesperson.two_opt)
(in module PYME.localization.traveling_salesperson)
two_opt_() (in module PYME.localization.traveling_salesperson)
two_opt_section() (in module PYME.Analysis.points.traveling_salesperson.sectioned_two_opt)
(in module PYME.localization.traveling_salesperson)
two_opt_swap() (in module PYME.Analysis.points.traveling_salesperson.two_opt)
(in module PYME.localization.traveling_salesperson)
two_opt_test() (in module PYME.Analysis.points.traveling_salesperson.two_opt)
(in module PYME.localization.traveling_salesperson)
TxtExporter (class in PYME.IO.dataExporter)
type (PYME.IO.clusterListing.FileInfo attribute)
(PYME.recipes.measurement.Plot attribute)
U
U() (in module PYME.Analysis.PSFGen.nijboer_zernike)
Unfold() (PYME.ui.autoFoldPanel.foldingPane method)
(PYME.ui.manualFoldPanel.foldingPane method)
UnifiedLoader (class in PYME.recipes.output)
Unifile (class in PYME.recipes.traits)
uniform_blob_paint() (in module PYME.Analysis.points.rings)
uniform_theory() (in module PYME.Analysis.points.rings)
uniform_theory_cdf() (in module PYME.Analysis.points.rings)
unixdate2httpdate() (in module PYME.cluster.webdav)
unixdate2iso8601() (in module PYME.cluster.webdav)
Unmixer (class in PYME.DSView.modules.splitter)
(class in PYME.DSView.modules.unmixing)
UnMixSettingsDlg (class in PYME.DSView.modules.unmixing)
unNestDtype() (in module PYME.IO.tabular)
unNestNames() (in module PYME.IO.tabular)
unpack() (PYME.contrib.lzw.BitUnpacker method)
unpackbyte() (in module PYME.contrib.lzw)
unpickleSlice() (in module PYME.localization.FitFactories.fitCommon)
UnPin() (PYME.ui.autoFoldPanel.foldingPane method)
(PYME.ui.manualFoldPanel.foldingPane method)
unregister() (PYME.misc.pyme_zeroconf.ZeroConfNS method)
Update() (in module PYME.DSView.modules.eventView)
update() (PYME.Acquire.microscope.StateManager method)
(PYME.Acquire.sampleInformation.slidePanel method)
(PYME.Acquire.ui.AnalysisSettingsUI.AnalysisSettingsPanel method)
(PYME.Acquire.ui.actionUI.ActionList method)
(PYME.Acquire.ui.intsliders.IntegrationSliders method)
(PYME.Acquire.ui.intsliders.IntegrationSliders_ method)
(PYME.Acquire.ui.lasersliders.LaserSliders method)
(PYME.Acquire.ui.lasersliders.LaserSliders_ method)
(PYME.Acquire.ui.lasersliders.LaserToggles method)
(PYME.Acquire.ui.multiview_select.MultiviewSelect method)
(PYME.Acquire.ui.positionUI.PositionPanel method)
(PYME.Acquire.ui.positionUI.PositionSliders method)
(PYME.DSView.arrayViewPanel.ArraySettingsAndViewPanel method)
(PYME.DSView.dsviewer.DSViewFrame method)
(PYME.DSView.modules.deconvolution.deconvolver method)
(PYME.DSView.modules.playback.PlayPanel method)
(PYME.LMVis.filterPane.FilterPane method)
(PYME.LMVis.filterPane.FilterPanel method)
(PYME.recipes.recipeGui.RecipeView method)
update_cache() (PYME.IO.clusterListing.DirCache method)
update_from_yaml() (PYME.recipes.base.ModuleCollection method)
update_levels() (PYME.ui.histLimits.HistLimitDialog method)
update_pyramid() (PYME.Analysis.tile_pyramid.ImagePyramid method)
update_spooler_compression_settings() (PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
update_version() (in module PYME.update_version)
update_version_hg() (in module PYME.update_version)
updateBuffers() (PYME.localization.remFitBuf.BufferManager method)
UpdateColourFilterChoices() (PYME.LMVis.colourFilterGUI.ColourFilterPane method)
UpdateDisp() (PYME.Acquire.ui.seqdialog.seqPanel method)
(PYME.DSView.fitInfo.FitInfoPanel method)
UpdateFileList() (PYME.recipes.recipeGui.BatchFrame method)
UpdateFileList2() (PYME.recipes.recipeGui.BatchFrame method)
UpdateFreeSpace() (PYME.Acquire.ui.HDFSpoolFrame.PanSpool method)
updateMetadata() (PYME.IO.h5rFile.H5RFile method)
updateStatus() (in module PYME.cluster.HTTPDataServer)
updateTrack() (PYME.Analysis.Tracking.tracking.Tracker method)
updateValue() (PYME.localization.MetaDataEdit.BoolFloatParam method)
(PYME.localization.MetaDataEdit.BoolParam method)
(PYME.localization.MetaDataEdit.ChoiceParam method)
(PYME.localization.MetaDataEdit.FilenameParam method)
(PYME.localization.MetaDataEdit.FloatListParam method)
(PYME.localization.MetaDataEdit.FloatParam method)
(PYME.localization.MetaDataEdit.IntParam method)
(PYME.localization.MetaDataEdit.RangeParam method)
(PYME.localization.MetaDataEdit.StringParam method)
updateView() (PYME.Acquire.Utils.fastTiler.fastTiler method)
updateVX() (PYME.Deconv.richardsonLucyMVM.MotionCompensatingRichardsonLucy method)
upload_directory() (in module PYME.IO.clusterUpload)
upload_glob() (in module PYME.IO.clusterUpload)
UPRIGHT (PYME.DSView.displayOptions.DisplayOpts attribute)
V
V() (in module PYME.Analysis.PSFGen.nijboer_zernike)
varnames (PYME.Analysis.Tracking.trackUtils.Clump attribute)
VectorfieldAngle (class in PYME.recipes.processing)
VectorfieldCurl (class in PYME.recipes.processing)
VectorfieldNorm (class in PYME.recipes.processing)
vectorial (PYME.DSView.modules.pupilTools.PupilTools attribute)
velocity_data (PYME.recipes.processing.CaWave attribute)
velocity_image (PYME.recipes.processing.CaWave attribute)
velocity_plot (PYME.recipes.processing.CaWave attribute)
verbose_fix_name() (in module PYME.IO.unifiedIO)
Verify() (PYME.Acquire.stackSettings.StackSettings method)
verify_cluster_results_filename() (in module PYME.cluster.HTTPRulePusher)
(in module PYME.cluster.HTTPTaskPusher)
vertex_normals (PYME.recipes.pointcloud.Tesselation attribute)
Vesicle (class in PYME.LMVis.tests.gl_test_objects)
VibrAnal (class in PYME.Acquire.Utils.vibrationAnalysis)
VibrationAnalyser (class in PYME.LMVis.Extras.vibration)
VibrationSpecgram() (PYME.LMVis.Extras.vibration.VibrationAnalyser method)
VideoFrame (class in PYME.LMVis.Extras.animation)
VideoPanel (class in PYME.LMVis.Extras.animation)
VideoView (class in PYME.LMVis.views)
View (class in PYME.LMVis.views)
View() (in module PYME.misc.mock_traitsui)
View3D() (in module PYME.DSView.dsviewer)
view_id (PYME.LMVis.views.View attribute)
ViewIm3D() (in module PYME.DSView.dsviewer)
ViewPanel (class in PYME.LMVis.Extras.saved_views)
VirtList (class in PYME.Acquire.sampleInformation)
visguiDriftPlot() (in module PYME.misc.shellutils)
visualiser (class in PYME.DSView.modules.vis3D)
visualize_reconstruction() (in module PYME.Analysis.points.spherical_harmonics)
vlj() (in module PYME.Analysis.PSFGen.nijboer_zernike)
voxelsize (PYME.DSView.modules.composite.CompositeDialog attribute)
(PYME.IO.image.ImageStack attribute)
voxelsize_x() (in module PYME.Analysis.PSFEst.psfQuality)
voxelsize_z_dec() (in module PYME.Analysis.PSFEst.psfQuality)
voxelsize_z_loc() (in module PYME.Analysis.PSFEst.psfQuality)
VoxelSizeDialog (class in PYME.Acquire.ui.voxelSizeDialog)
VoxNM (class in PYME.IO.load_psf)
VoxSizeDialog (class in PYME.DSView.voxSizeDialog)
VS (class in PYME.IO.image)
(class in PYME.localization.autopsf.roifit)
W
walk() (in module PYME.IO.clusterIO)
walkFunc() (in module PYME.misc.startCommentify)
Warn() (in module PYME.LMVis.Extras.multiColourAnalysis)
(in module PYME.LMVis.Extras.QPobjectSegment)
warpCorrectRedImage() (in module PYME.Analysis.points.twoColour)
Watershed (class in PYME.recipes.processing)
wavefront_image (PYME.recipes.processing.CaWave attribute)
WavefrontDetection (class in PYME.recipes.processing)
WavefrontVelocity (class in PYME.recipes.processing)
wavelength (PYME.DSView.modules.psfTools.PSFTools attribute)
(PYME.DSView.modules.pupilTools.PupilTools attribute)
waveRecipeFileName (PYME.recipes.processing.FindCaWaves attribute)
wavetableZScanner (class in PYME.Acquire.zScanner)
WebAuth() (PYME.cluster.webdav.DAVRequestHandler method)
weightedAverage() (in module PYME.Analysis.points.DeClump.pyDeClump)
weightedAverage_() (in module PYME.Analysis.points.DeClump.pyDeClump)
WFNodeServer (class in PYME.cluster.rulenodeserver)
WFPSFFitFactory (class in PYME.localization.FitFactories.InterpFitWFR)
WFRuleServer (class in PYME.cluster.ruleserver)
WhiteTophat (class in PYME.recipes.processing)
widefield_pupil_and_propagator() (in module PYME.Analysis.PSFGen.fourierHNA)
(in module PYME.Analysis.PSFGen.fourierHNA2)
widefieldify() (in module PYME.Analysis.widefieldify)
WIDTH (PYME.LMVis.tests.gl_test_objects.Vesicle attribute)
width() (in module PYME.Analysis.angleFilter)
(PYME.IO.image.ImageBounds method)
(PYME.LMVis.visHelpersMin.ImageBounds method)
width_filter() (in module PYME.Analysis.angleFilter)
width_filter_m() (in module PYME.Analysis.angleFilter)
width_o() (in module PYME.Analysis.angleFilter)
widthPixels (PYME.recipes.filters.MaskEdges attribute)
WienerDeconvolver (class in PYME.DSView.modules.deconvolution)
WinDLL (in module PYME.misc.mock_ctypes)
window (PYME.recipes.localisations.AutocorrelationDriftCorrection attribute)
(PYME.recipes.processing.BackgroundSubtractionMovingAverage attribute)
with_constant() (in module PYME.contrib.pad.pad)
with_linear_ramp() (in module PYME.contrib.pad.pad)
with_maximum() (in module PYME.contrib.pad.pad)
with_mean() (in module PYME.contrib.pad.pad)
with_median() (in module PYME.contrib.pad.pad)
with_minimum() (in module PYME.contrib.pad.pad)
with_reflect() (in module PYME.contrib.pad.pad)
with_wrap() (in module PYME.contrib.pad.pad)
workerlog() (in module PYME.ParallelTasks.launchWorkers)
WorkspaceTree (class in PYME.LMVis.workspaceTree)
WorkWrap (class in PYME.LMVis.workspaceTree)
Worm (class in PYME.LMVis.tests.gl_test_objects)
Wrap() (in module PYME.IO.dataWrap)
write() (PYME.cluster.webdav.BufWriter method)
(PYME.DSView.logparser.logwriter method)
(PYME.IO.MetaDataHandler.SimpleMDHandler method)
write_metadata() (PYME.DSView.modules.psfExtraction.PsfExtractor method)
writebytes() (in module PYME.contrib.lzw)
writecoords() (in module PYME.misc.shellutils)
WriteSimple() (PYME.IO.MetaDataHandler.MDHandlerBase method)
writeTiff() (in module PYME.IO.FileUtils.saveTiffStack)
writeXML() (PYME.IO.MetaDataHandler.OMEXMLMDHandler method)
(PYME.IO.MetaDataHandler.XMLMDHandler method)
wsgiref_server() (in module PYME.cluster.dataserver_wsgi)
wxThread (class in PYME.misc.wxThread)
X
x (PYME.IO.image.VS attribute)
(PYME.IO.load_psf.VoxNM attribute)
(PYME.LMVis.tests.gl_test_objects.GridContainer attribute)
(PYME.LMVis.tests.gl_test_objects.TestObject attribute)
(PYME.LMVis.tests.gl_test_objects.TestObjectContainer attribute)
(PYME.localization.autopsf.roifit.VS attribute)
X (PYME.localization.FitFactories.AstigGaussGPUFitFR.GaussianFitFactory attribute)
(PYME.localization.FitFactories.GaussMultifitLinesR.GaussianFitFactory attribute)
(PYME.localization.FitFactories.GaussMultifitR.GaussianFitFactory attribute)
(PYME.localization.FitFactories.GaussMultifitSR.GaussianFitFactory attribute)
(PYME.localization.FitFactories.SplitterMultifitSR.GaussianFitFactory attribute)
x (PYME.tileviewer.tileviewer.Location attribute)
x0() (PYME.localization.FitFactories.Gauss3DFitR.GaussFitResult method)
(PYME.localization.FitFactories.LatPSFFitR.PSFFitResult method)
XC (PYME.DSView.modules.blobMeasure.DataBlock attribute)
xkey (PYME.recipes.measurement.Plot attribute)
XLSOutput (class in PYME.recipes.output)
XMLDict_Parser (class in PYME.cluster.webdav)
XMLMDHandler (class in PYME.IO.MetaDataHandler)
xp (PYME.DSView.displayOptions.DisplayOpts attribute)
xyBoundsMode (PYME.recipes.localisations.DensityMapping attribute)
XYZTCDataSource (class in PYME.IO.DataSources.BaseDataSource)
Y
y (PYME.IO.image.VS attribute)
(PYME.IO.load_psf.VoxNM attribute)
(PYME.LMVis.tests.gl_test_objects.GridContainer attribute)
(PYME.LMVis.tests.gl_test_objects.TestObject attribute)
(PYME.LMVis.tests.gl_test_objects.TestObjectContainer attribute)
(PYME.localization.autopsf.roifit.VS attribute)
Y (PYME.localization.FitFactories.AstigGaussGPUFitFR.GaussianFitFactory attribute)
(PYME.localization.FitFactories.GaussMultifitLinesR.GaussianFitFactory attribute)
(PYME.localization.FitFactories.GaussMultifitR.GaussianFitFactory attribute)
(PYME.localization.FitFactories.GaussMultifitSR.GaussianFitFactory attribute)
(PYME.localization.FitFactories.SplitterMultifitSR.GaussianFitFactory attribute)
y (PYME.tileviewer.tileviewer.Location attribute)
y0() (PYME.localization.FitFactories.Gauss3DFitR.GaussFitResult method)
(PYME.localization.FitFactories.LatPSFFitR.PSFFitResult method)
YC (PYME.DSView.modules.blobMeasure.DataBlock attribute)
Yellow() (in module PYME.misc.extraCMaps)
yiq_to_rgb() (in module PYME.misc.colorsys)
ykey (PYME.recipes.measurement.Plot attribute)
yp (PYME.DSView.displayOptions.DisplayOpts attribute)
Z
z (PYME.IO.image.VS attribute)
(PYME.IO.load_psf.VoxNM attribute)
(PYME.LMVis.tests.gl_test_objects.TestObject attribute)
(PYME.LMVis.tests.gl_test_objects.TestObjectContainer attribute)
(PYME.localization.autopsf.roifit.VS attribute)
z() (in module PYME.misc.zernike)
z0() (PYME.localization.FitFactories.Gauss3DFitR.GaussFitResult method)
(PYME.localization.FitFactories.LatPSFFitR.PSFFitResult method)
z_column_name (PYME.recipes.processing.AverageFramesByZStep attribute)
z_sampling (PYME.recipes.processing.ResampleZ attribute)
z_scale (PYME.recipes.localisations.SphericalHarmonicShell attribute)
zBounds (PYME.recipes.localisations.DensityMapping attribute)
zBoundsMode (PYME.recipes.localisations.DensityMapping attribute)
ZC (PYME.DSView.modules.blobMeasure.DataBlock attribute)
ZCListener (class in PYME.misc.pyme_zeroconf)
ZDEPSHIFT (PYME.Analysis.points.twoColour.lin3zModel attribute)
zernike() (in module PYME.misc.zernike)
zernikeIm() (in module PYME.misc.zernike)
ZernikePSF (class in PYME.Analysis.PSFGen.fourierHNA)
ZernikePSFModel (class in PYME.localization.autopsf.autopsf)
ZernikeView (class in PYME.DSView.modules.pupilTools)
ZeroConfNS (class in PYME.misc.pyme_zeroconf)
zeros() (in module PYME.util.shmarray.shmarray)
ZMX (class in PYME.misc.zemax)
Zoom (class in PYME.recipes.filters)
zoom (PYME.recipes.filters.Zoom attribute)
(PYME.recipes.output.RGBImageOutput attribute)
zoom() (PYME.DSView.modules.graphViewPanel.MyNavigationToolbar method)
(PYME.DSView.modules.pupilView.MyNavigationToolbar method)
zp (PYME.DSView.displayOptions.DisplayOpts attribute)
zPadding (PYME.recipes.processing.Deconvolve attribute)
zs() (in module PYME.misc.shellutils)
zScanner (class in PYME.Acquire.zScanner)
zSliceThickness (PYME.recipes.localisations.DensityMapping attribute)
zSpacing (PYME.DSView.modules.pupilTools.PupilTools attribute)
ZStackTaskListProtocol (class in PYME.Acquire.protocol)