AC | Auto Correlation |
AC MS | Auto Correlation - Masked and normalized |
AC N | Auto Correlation - Normalized |
AD | ADd images |
AD M | ADd images - using Multipliers |
AP CA | Alignment Program - Classification and Alignment |
AP MD | Alignment Program - 3D projection alignment. |
AP MQ | Alignment Program - 3D projection / Multi reference alignment |
AP MR | Alignment Program - Multi-reference alignment |
AP RA | Alignment Program - Rotational Alignment |
AP SA | Alignment Program - Shift Alignment |
AP SR | Alignment Program - Shift and Rotational alignment |
AR | ARithmetic operation |
AS | Average images - find & save variance |
AS AD | Add to an existing average - find variance. |
AS DC | Average images - find & save variance, from doc. file |
AS F | Average images - find statistics & Q factor map |
AS R | Average images - find & save variance, better |
AT IT | Automatic particle picking - intermediate program. |
AT PK | Automatic particle picking - peak search |
AT SA | Automatic particle picking - statistical parameters. |
AT WN | Automatic particle selection |
|
|
BC | Box Convolution |
BL | BLank |
BP 3 | Back Projection - 3D, iterative (ART) |
BP 3D | Back Projection - 3D, using Euler angles, || |
BP 3E | Back Projection - 3D, using Euler angles |
BP CTF | Back Projection - 3D, CTF correction, || |
BP GW | Back Projection - weighted, arbitrary geometry |
BP GW3 | Back Projection - weighted, arbitrary geometry, 3 angles |
BP MEM2 | Back Projection - 2D maximum entropy method |
BP R2 | Back Projection - 2D, weighting of the image series |
BP RP | Back Projection - 3D, iterative, with constraints, || |
BP S2 | Back Projection - 2D, single tilt iterative, with constraints |
BP W2 | Back Projection - 2D, filtered weighted |
BP WX | Back Projection - weighted, X |
BP WY | Back Projection - weighted, Y |
BP XY | Back Projection - simple for single axis & conical tilting |
|
|
CA | Correspondence Analysis - prepare sequential file |
CA 3 | Correspondence Analysis - create 3-D volume |
CA E | Correspondence Analysis - prepare sequential file |
CA M | Correspondence Analysis - Map |
CA MAP | Correspondence Analysis - nonlinear MAPping |
CA R | Correspondence Analysis - Reconstitute images |
CA S | Correspondence Analysis - find Solution |
CA SI | Correspondence AnalysiS - Initialize |
CA SM | Correspondence Analysis - Factor Map |
CA SME | Correspondence Analysis - Factor Map and Eigen Values |
CA SR | Correspondence Analysis - full Reconstitution of images |
CA SRD | Correspondence Analysis - Reconstitute Differential images |
CA SRI | Correspondence Analysis - Reconstitute Importance images |
CA SRP | Correspondence Analysis - PCA reconstitution |
CA VAR | Correspondence Analysis - Variance |
CA VIS | Correspondence Analysis - Create VISual map |
CC | Cross Correlation |
CC C | Cross Correlation Coefficient |
CC N | Cross Correlation - Normalized |
CE | Contrast Enhancement |
CE FIT | Contrast Enhancement - FIT the histogram |
CE GNC | Contrast Enhancement - Graduated Non Convex restoration |
CE MED | Contrast Enhancement - using Median Filtering |
CE OD | Contrast Enhancement - adjust Optical Densities |
CG | Center of Gravity |
CG 3 | Center of Gravity - radius of gyration |
CG 3S | Center of Gravity - Solid body option |
CG PH | Center of Gravity - PHase approximation |
CI | Confidence Interval |
CL CLA | CLAssification - Clusters |
CL CLAF | CLassification - Fuzzy |
CL HC | CLassification - Hierarchical Clustering |
CL HD | CLassification - Hierarchical clustering, calculate classes |
CL HE | CLassification - Hierarchical clustering, create docfiles |
CL KM | CLassification - K Means clustering |
CN | CoNvolution |
CN N | CoNvolution - Normalized |
CO | COntours into contour storage file |
CO S | COntours into STERECON storage files |
CP | CoPy |
CP FIX | CoPy to FIX a malformed stack |
CP FROM ASCII | CoPy ASCII text file to SPIDER format |
CP FROM MRC | CoPy MRC format File to SPIDER File |
CP FROM PDB | Copy PDB file to SPIDER format |
CP FROM PE | Copy Perkin Elmer disk file to SPIDER format |
CP FROM RAW | CoPy RAW Image to SPIDER |
CP FROM SF3 | Copy 3D simple Fourier file to SPIDER format |
CP FROM SHORT | CoPy SHort header file to SPIDER file |
CP FROM TERM | CoPy terminal input to SPIDER file |
CP FROM TR | Copy old TR file to SPIDER format |
CP FROM VAX | CoPy VAX SPIDER file to a Unix SPIDER file |
CP TO ASCII | CoPy SPIDER file to ASCII text format |
CP TO BRIX | CoPy SPIDER volume to BRIX file for O input |
CP TO MRC | CoPy SPIDER file TO MRC format file |
CP TO POST | CoPy SPIDER file to a POSTscript file |
CP TO RAW | CoPy SPIDER file to a 8-bit raw image |
CP TO SF3 | Copy SPIDER 3D Fourier file to simple format |
CP TO SGI | CoPy SPIDER file to SGI format |
CP TO TARGA | CoPy SPIDER file to Targa format |
CP TO TIFF | CoPy SPIDER file to a TIFF format |
CP TO VAX | CoPy SPIDER Unix file to Vax SPIDER format |
CP TO VV | CoPy SPIDER volume to Voxel View format |
CS DI GD | Contour display - on Gould plotter |
CS DI PL | Contour display - convert to HPGL |
CS DI PO | Contour display - convert to Postscript |
CS DI VT | Contour display - on VT125/240 terminal |
CS MV | Contour Storage - MoVie.BYU interface |
CV REPL | projection onto ConVex sets - projector Replace |
|
|
FC | File Contouring |
FC E | File Contouring - External contour levels |
FD | Filter according to a Document file |
FF | Fourier Filter |
FF B | Fourier Filter - Bar, ky direction |
FF BX | Fourier Filter - Bar, kx direction |
FF PLOT | Fourier Filter - design filter |
FF S | Fourier Filter - restore Surface topography |
FI | File Information |
FI A | File Information - Multiple files |
FI N | File Information - Do not halt if file not found |
FI X | File Information - place header values in registers |
FP | Fourier interPolation |
FQ | Filter - Quick |
FQ NP | Filter - Quick, No Padding |
FR | File Read |
FS | Find Statistics |
FS M | Find Statistics - within Mask |
FT | Fourier Transform |
|
|
PA | PAtch |
PD | PaD |
PF | Graph (ProFile) an image row - to contour storage file |
PJ 3 | ProJect - 3D volume |
PJ 3E | ProJect - 3D volume using Eulerian angles, fast |
PJ 3Q | ProJect - 3D volume using Eulerian angles |
PJ 3T | ProJect - 3D volume using internal Threshold |
PJ AT | ProJect 3D volume using exponential ATtenuation |
PJ COL | ProJected surface - COLoring |
PJ CYL | ProJect - 3D volume onto CYLinder |
PJ INTER | ProJected Surface - INTERlace two surface representations |
PJ SHAD | ProJected Surface - cosine SHADing |
PJ ST | ProJected Surface - Creation |
PK | PeaK search |
PK 3 | PeaK search - 3D |
PK 3D | PeaK search - 3D, output to doc. file |
PK C | PeaK search - Center of gravity |
PK D | PeaK search - output to doc. file |
PK DC | PeaK search - Center of gravity, output to Doc. file |
PL | Plot doc. file data into CNT meta-file |
PL FIT | FIT PoLynomial to document file data |
PL HI | PLot HIstogram - from document file |
PP L | Put Points in image - from doc. file Listing |
PP LL | Put Lines in image - from doc. file Listing |
PP P | Put Points in image - from doc file, alters neighbors |
PP V | Put height image into Volume |
PR | overPRint image - to results file |
PR P | overPRint Power spectrum - to results file |
PR T | overPRint image - to Terminal |
PS | Pick Slice - Y (xz planes) |
PS A | Pick Slice - Arbitrary direction |
PS X | Pick Slice - X, (yz planes) |
PS Z | Pick Slice - Z, (xy planes) |
PT | create PaTtern or Mask file |
PW | PoWer spectrum |
PW L | PoWer spectrum - Log10 |
|
|
RA | RAmp |
RA GN | Gaussian contrast Normalization |
RC | Real Convolution |
RE | REturn |
RF | R Factor |
RF 3 | Phase Residual & Fourier shell correlation, 3D |
RF SN | Spectral SNR of images |
RM | Radon transforM suite of programs. |
RO | ROtational average - single line output |
RO I | ROtational average - 2D Image output |
RP | Replace Pixel value |
RR | Read Register |
RT | RoTate - image or volume, use average as background |
RT 3 | RoTate - volume, slow |
RT 3A | RoTate - volume, around arbitrary center |
RT 3D | RoTate - volume, fast |
RT 90 | RoTate - image or volume, by 90, 180, or 270 degrees |
RT B | RoTate - image or volume, supply Background |
RT C | RoTate - image, around arbitrary center, for small files |
RT M | RoTate - image or volume, use minimum as background |
RT SQ | RoTate - image or volume, Shift, use Quadratic interpolation |
|
|
TF | Transfer Function - defocus dependent |
TF C | Transfer Function - Complex |
TF C3 | Transfer Function - Complex 3D |
TF CT | Transfer Function - phase flipping, Complex, Ternary |
TF CT3 | Transfer Function - Complex, Ternary 3D |
TF CTF | Transfer Function - CTF correction |
TF D | Transfer Function - Display |
TF DDF | Transfer Function - Determine DeFocus and amplitude contrast |
TF DEV | Transfer Function - Determine EnVelope function |
TF DNS | Transfer Function - determine and Delete NoiSe background |
TF FL | Transfer function - Flip sign of Fourier transform |
TF MFL | Transfer Function - Make FiLter file for 'TF FL' |
TH | THreshold |
TH C | THreshold - Change a value |
TH F | THreshold - set a Fixed value |
TH M | THreshold - and create Mask |
TM | TiMe |
TP | Three dimensional Plot |
TT | Sets image TiTle |
|
|