MRC Headers

Headers of the MRC programs, but in the 2DX modified version. Please use these as *rough* guidelines, but check in the actual programs for the current state of your local copy.

backauto — by Admin — last modified 2008-10-30 08:21

PROGRAM TO CALCULATE THE MEAN RADIAL DENSITY (BACKGROUND) OF AN ELECTRON DIFFRACTION PATTERN - any size rectangular area. The new version has options to carry out automatic centre determination, and update of the header into the invisible IEXTRA records used by the subsequent program PICKYCOR.

allspace — by Admin — last modified 2008-10-30 08:21

umbrella program to calculate internal phase residual in all 17 space groups from data on a single film. Can do the same thing within one film as ORIGTILT does between different films.

ccunbendk — by Admin — last modified 2008-10-30 08:21

THE PROGRAM UNBENDS THE CRYSTAL USING OUTPUT FROM THE CROSS-CORRELATION PEAK SEARCH PROGRAM, CCORSERCH OR ITS LATER VARIANTS PROFSERCH AND QUADSERCH(0, 1, and 2)

latline — by Admin — last modified 2008-10-30 08:21

This is a program to do fitting of curves to either Intensity or F,Phi data for individual layer lines.

label — by Admin — last modified 2008-10-30 08:21

Program to perform simple manipulations on image files

avrgamphs — by Admin — last modified 2008-10-30 08:21

PROGRAM TO OBTAIN WEIGHTED AVERAGE PHASES FROM MERGED LIST

fftrans — by Admin — last modified 2008-10-30 08:21

FFT

maketran — by Admin — last modified 2008-10-30 08:21

This program reads in an MTZ file of diffraction amplitudes and phases from the experimentally determined and merged 3-D data from a 2-dimensional crystal, and writes out the transform of the projection of the structure in the direction, at the magnification, and modified by the requested CTF, for later use as a reference in cross-correlation with the digitised experimental image.

ctfapplyk — by Admin — last modified 2008-10-30 08:21

derived from CTFPLOT giving automatic application of C.T.F. to phases input from MMBOX and output ready for ORIGTILT. PROGRAM PLOTS SPOTS FROM MMBOX IN RECIPROCAL SPACE AND C.T.F. PLOT OF IMAGE.

ctffind2 — by Admin — last modified 2008-10-30 08:21

determines defocus and astigmatism for images of arbitrary size (MRC format). Astigmatic angle is measured form x axis (same convetiones as in the MRC 2D image processing programs).

boximage — by Admin — last modified 2008-10-30 08:21

Simple boxing program to create circular or polygonal box with no change in image size.

masktran — by Admin — last modified 2008-10-30 08:21

Program for masking a Fourier transform

latlinprescal — by Admin — last modified 2008-10-30 08:21

program to correct image amplitudes for effects of CTF and to calculate appropriate weights for output to LATLINE.

convdeconv — by Admin — last modified 2008-10-30 08:21

Program to read in a list of amplitudes and phases and calculate a new list of amplitudes and phases which represent either the convolution or deconvolution of the original.

mmboxa — by Admin — last modified 2008-10-30 08:21

derived from Judy Smith's NNBOX program but with more statistics suitable for more high resoution crystallographic analysis.

mmlatref — by Admin — last modified 2008-10-30 08:21

Refinement of lattice parameters for maximum amplitude.

origtiltk — by Admin — last modified 2008-10-30 08:21

THREE-DIMENSIONAL ORIGIN, BEAMTILT AND CRYSTAL TILT REFINEMENT

ctffind — by Admin — last modified 2008-10-30 08:21

This program will attempt to determine the defocus (not yet astigmatism) of any general image whether or not it contains crystalline areas. The program will also apply a CTF correction either by multiplication or division (accompanied by a Wiener filter). Both amplitude and phase contrast with astigmatism can be applied.

rfiltim — by Admin — last modified 2008-10-30 08:21

ROTATIONAL FILTERING OF IMAGES IN RECIPROCAL SPACE

padbox — by Admin — last modified 2008-10-30 08:21

adds data around the edge

ctftilt — by Admin — last modified 2008-10-30 08:21

CTFTILT - determines defocus, astigmatism tilt axis and tilt angle for images of arbitrary size (MRC format). Astigmatic angle is measured from x axis (same conventions as in the MRC 2D image processing programs).

pickprofk — by Admin — last modified 2008-10-30 08:21

Program for e.d. spot integration, using least-squares profile-fitting

pickauto — by Admin — last modified 2008-10-30 08:21

PROGRAM TO INTEGRATE SPOTS ON A LATTICE

ttboxk — by Admin — last modified 2008-10-30 08:21

prints out amplitudes & phases in N * N boxes from a Fourier transform, fully corrected for contrast transfer function in tilted image.

syncfitp3 — by Admin — last modified 2008-10-30 08:21

FIT SYNC FUNCTIONS TO LATTICE LINES PRODUCED BY MERGHIGH WITH OR WITHOUT PREPARATION OF INPUT DATA SET FOR PLOTTING VERSION INCLUDES ESTIMATES OF ERRORS IN SYNC FUNCTION COEFFS AND ERRORS IN FITTED CURVE.

twofile — by Admin — last modified 2008-10-30 08:21

Program to perform simple additions or multiplications on 2 images of same dimensions and type (i.e. both must be real or both complex).

scalimamp3d — by Admin — last modified 2008-10-30 08:21

Program to scale up image amplitudes to restore the resolution-dependent fall off due to image blurring, radiation damage, temperature factor, static disorder, charging or any other source of power loss.

ttrefine — by Admin — last modified 2008-10-30 08:21

refines defocus, astigmatism, tiltaxis and tiltangle in images of thin tilted crystals.

ttmask — by Admin — last modified 2008-10-30 08:21

Program for masking a Fourier transform, with simultaneous correction for tilted contrast transfer function

taperedge — by Admin — last modified 2008-10-30 08:21

Simple program to taper edges of a rectangular image so that there are no sharp discontinuities which make the Fourier tranform contain spikes

quadserchk — by Admin — last modified 2008-10-30 08:21

CROSS-CORRELATION SEARCHING PROGRAM

ttboxref — by Admin — last modified 2008-10-30 08:21

Refines lattice parameters in image transform of tilted specimen

twolatt — by Admin — last modified 2008-10-30 08:21

plots two lattices to see if there is overlap