
A CROSS-REFERENCE INDEX
- add images
- (same size) AD
- (different size) PA
- add image series AS
- align
- (reference-free) AP
- (reference-based) -> PROC
- arithmetic point-for-point operations AR
- ART iterative reconstruction BP 3
- auto-correlation AC
- average images AS
- back projection BP
- blank file BL
- blow up an image IP
- box convolution BC
- center of gravity CG,
CG 3
- change file extension NC
- classification CL
- cluster determination & extraction CL
- confidence interval EC
- contrast normalization
- (linear ramp subtraction) RA
- (Gaussian fit and subtraction) RA GN
- construct Fourier CF,
CF 3
- contour storage CS
- contrast enhancement CE
- contrast transfer function TF
- copy to and from SPIDER files CP
- contour
- (line graphics) CO
- (into image) FC
- convolution CN,
BC, see also WEB
- correspondence analysis CA
- cosine shading of volumes -> surface shading
- create constant image file BL
- cross-correlation CC
- delete a file DE
- density foldover (multiple linear density mapping) DF
- density reference (insert "calibration threads")
- (compare 2 volumes) DR DIFF
- (difference between 2 volumes) DR ERR
- divide MU / or
MU D
- do-loop
- (start) DO
- (end) LB<N> where <N> is an integer
- dust (remove outliing values from image) DU
- edge detection (recursive, real space) ED
- end SPIDER session EN
- enlarge an image IP
- error probability EP
- extract central section from 3D Fourier EF
- factor map display CA SM or
SD C then WEB
- file information FI
- filter (general) GF
- filter using doc file FD
- find statistics of an image FS
- Fourier construction CF,
- Fourier filter FF,
FQ
- Fourier interpolation (by padding with zeros) FP
- Fourier list FL
- Fourier ring correlation RF
- Fourier transform FT
- gallery (put images into gallery) MN or WEB/Montage
- go to (in conjunction with logical if) GOTO LB where <N> is an integer
- graph (produce display of selected image row) GR
- helical Fourier IF
- histogram HI or WEB/Histogram
- if IF, IF..THEN, IF..GOTO
- interpolating images IP,
IPT,
FP
- insert (an image into another, larger one) IN
- intensity of a spot SP
- label LB<N>
- where <N> is an integer
- lattice indexing (from power spectrum) WT
- list values in image or header LI
- list doc file contents LD
- logical if IF
- low-pass filtration
- (box convolution) BC
- (Fourier filtration) FT-
FF-
FT
- (quick Fourier filtration) FQ
- make a stack file MS
- marker fit (single-tilt reconstruction) MK
- mask MA
- (creation) PT
- (creation by using threshold) TH M
- (multiplication ) MM
- menu of operations ME
- mirror (create mirror-related image) MR
- mode (global processing switch) MD
- model (create model distributions in 2D and 3D) MO
- montage MN or Web Montage
- multiply
- (images) MU
- (image with mask) MM
- (complex-valued files) MU
- multi-variate statistics CA
- new code (switch to new data code) NC
- non-linear mapping (of MSA coordinates onto 2D plane) CA MAP
- orientation search OR
- pad (put image into larger frame, fill outside with value) PD
- particle picking (automatic) AT
- patch averaging WV
- pattern (create pattern using single pixels) PT
- PDB to SPIDER CP FROM PDB
- peak search PK
- phase residual (differential) RF
- pick slice (from a volume) PS
- place points or lines into image PP
- plot doc. file contents into contour metafile PL
- plot col. or row of image into contour metafile PL
- plot contour metafile into Postscript file CSDIPO
- POCS CV REPL
- power spectrum (from Fourier transform) PW
- principal component analysis CA
- print (image on line printer or various terminals) PR
- project PJ
- radon transforms RM
- ramp RA
- read register RR
- reciprocal lattice filter GF
- reconstitute images CA SR, CA SRD
- reduce transform (condenses Fourier into small Fourier file) RD
- resizing images RD, RD,RD
- resolution criterion (by comparing two Fourier transforms) RF
- return (from procedure) RE
- R-Factor RF
- rotate RT
- rotational average (of image with respect to a given center) RO
- save in document file
- (saves selected registers in doc. file) SD
- (saves MSA coordinates in doc. file) SD C
- save (or unsave) registers during SPIDER session SR
- shear image SZ
- shift SH
- signal to noise ratio RF
- seed fill SH
- sort document (sorts doc file by values in selected column) SD SORT
- square (multiply image with itself) SQ
- square root (take square root of each pixel) WU
- sum alignment (2D vectorial additions of rotations and shifts) SA
- stack images into a volume SK
- stack-replace (replace a slice by an image) SK R
- statistics of an image FS
- sub-sample an image IP
- subtract SU
- surface representation of volumes PJ ST or use WEB
- surface shading (together with PJ ST)
PJ SHAD or use WEB
- three-dimensional plot (perspective plot of any 2D map) TP
- threshold an image from above or below TH
- (and produce binary mask file) TH M
- tilt axis determination DC
- time (print time at given point in batch) TM
- title (add title to SPIDER file) TT
- trace -> MD ON
- transfer function TF
- t-test EP TT
- unsave document UD
- variance
- (of an image series) AS
- (of an image) FS
- vector operation (performs vectorial additions on angles in doc file) VO
- window (select small area from image) WI, see also WEB
- window averaging (average unit cell repeats within patches)WV
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