make3diter

Iteratively improves 3D models using real-space methods.

make3diter <3d map in> <class averages> <3d map out> [testonly] [sym=<c4,icos,etc>] [frac=<0 to d-1>/<d>] [tozero] [speed=<1-10>] [keepthr=<thr>]

Parameters:


<3d map in>The input map to be improved
<class averages>The class averages used to construct the model
<3d map out>The output, same as input ok
[testonly]This will measure how closely the class averages match the current model
[sym=<c4,icos,etc>]Symmetry to use
[frac=<0 to d-1>/<d>]For parallel processing
[tozero]Use a modified version of the algorithm which tends towards zero
[speed=<1-10>]Experimental, don't use
[keepthr=<thr>]Threshold for exclusion of class averages, .75 is the default larger values include more class averages

Usage:

make3diter threed.3.mrc classes.3.img threed.3a.mrc sym=c4 tozero

Description

This program will take a set of class averages, and a 3D model generated by make3d, and attempt to eliminate Fourier artifacts using an iterative real-space technique. In addition, the 'tozero' option modifies the algorithm so it will tend to make the values in the map move towards zero, unless the projections strongly agree that they should be non-zero.

Generally this command is run several times. The 'tozero' option usually shouldn't be used more than 2-4 times in a row or it will tend to produce high resolution 'foam' in the image.


EMAN Manual page, generated Fri Feb 8 16:12:25 2002