HOME GUIDE OPERATIONS DOCS ERRORS FORMATS INSTALL NEW TIPS WEB SITES

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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