Modules
Deprecated (not recommended) /
General
Image measurements /
- Measure intensity distribution
- Measure image dimensions
- Measure image texture
- Best focus stack
- Measure image colocalisation
- Measure image intensity
Image processing / Miscellaneous /
Image processing / Pixel /
- Image calculator
- Manually edit image
- Weka probability maps
- Colour deconvolution
- Image math
- Normalise intensity
- Plot kymograph
- Project image
- Invert image intensity
- Threshold image
- Bleaching correction
- Set lookup table
- Combing correction
- Filter image
Image processing / Pixel / Binary /
- Calculate distance map
- Fill holes
- Extended minima
- Dilate and erode
- Binary operations 2D
- Watershed transform
- Fill holes by volume
Image processing / Stack /
- Extract substack
- Apply offset correction
- Image type converter
- Replace image
- Flip stack
- Concatenate stacks
- Convert stack to timeseries
- Register images
- Crop image
- Remove image
- Focus stack
- Unwarp images
- Interpolate Z axis
Input output /
Miscellaneous /
Object measurements / Intensity /
- Measure object intensity
- Measure object colocalisation
- Measure object texture
- Measure spot intensity
- Measure radial intensity profile
Object measurements / Miscellaneous /
- Apply manual classification
- Calculate statistics for children
- Bin objects by measurement
- Calculate measurement periodogram
Object measurements / Spatial /
- Fit ellipse
- Measure object shape
- Measure object curvature
- Measure track motion
- Measure relative orientation
- Calculate nearest neighbour
- Measure object centroid
- Fit ellipsoid
- Measure object limits
- Measure object overlap
- Fit longest chord
- Fit Gaussian 2D
Object processing / Identification /
- Hough-based detection
- Extract object edges
- Ridge detection
- Run TrackMate
- Manually identify objects
- Active contour-based detection
- Track objects
- Project objects
- Identify objects
- Relate objects
- Get local object region
Object processing / Miscellaneous /
Object processing / Refinement /
- Filter objects
- Object clustering
- Reassign enclosed objects
- Expand and shrink objects
- Merge objects
- Remove objects