EMAN Wiki

usage: e2classify.py <simMatrixIn> <classMatrixOut> [options]

	This program analyzes a similarity matrix as produced by e2simmx.py and produces a classification matrix mapping class
	membership for each particle, which can in-turn be used with e2classaverage.py.

	Takes a similarity matrix that has been created between reprojections-input (col) and particles-input (row) stacks of 2-D images.
	Typically these have been created via e2simmx such as

	e2simmx.py proj.hed part.hed simMatrix.hed --saveali --align=rotate_translate:maxshift=5

	The similarity matrix is a stack of 1 or 5 images: similarity, dx,dy,dalpha,mirror.
	The output is 6 images: class, weight, dx, dy, dalpha, mirror).
	See the wiki for more complete documentation of the files.
	

positional arguments:
  positionalargs

options:
  -h, --help         show this help message and exit
  --version          show program's version number and exit
  --help-to-html     print this help message in html format
  --sep SEP          The number of classes a particle can contribute towards (default is 1)
  --simvec           Instead of using the class for the peak value, uses the pattern of similarities for each orientation for assignment.
  --verbose n, -v n  verbose level [0-9], higher number means higher level of verboseness
  --nofilecheck      Turns file checking off in the check functionality - used by e2refine.py.
  --check, -c        Performs a command line argument check only.
  --noalign          Ignore the alignments
  --ppid PPID        Set the PID of the parent process, used for cross platform PPID