NAME¶
gmm - Gaussian mixture model segmentation
SYNOPSIS¶
gmm InputImage OutputImage PriorImages
DESCRIPTION¶
Segment an image into c classes using the EM algorithm for Gaussian mixtures
with optional priors.
OPTIONS¶
- --help
- Write list of basic command line options to standard output.
- --help-all
- Write complete list of basic and advanced command line options to standard
output.
- --wiki
- Write list of command line options to standard output in MediaWiki
markup.
- --man
- Write man page source in 'nroff' markup to standard output.
- --xml
- Write command line syntax specification in XML markup (for Slicer
integration).
- --version
- Write toolkit version to standard output.
- --echo
- Write the current command line to standard output.
- --verbose-level <integer>
- Set verbosity level.
- --verbose, -v
- Increment verbosity level by 1 (deprecated; supported for backward
compatibility).
- --threads <integer>
- Set maximum number of parallel threads (for POSIX threads and
OpenMP).
General Classification Parameters¶
- --mask <string>, -m <string>
- Path to foreground mask image. If this is not provided, the input image is
used as its own mask, but this does not work properly if the input image
itself has pixels with zero or negative values. [Default:
NONE]
- --classes <integer>, -c
<integer>
- Number of classes. [Default: 3]
- --iterations <integer>, -n
<integer>
- Number of EM iterations. [Default: 10]
Handling of Priors¶
- --priors-init-only
- Use priors for initialization only.
- --prior-epsilon <double>, -e
<double>
- Small value to add to all class priors to eliminate zero priors.
[Default: 0]
Output Parameters¶
- --probability-maps, -p
- Write probability maps. The file names for these maps will be generated
from the output image path by inserting '_prob#' before the file format
suffix, where '#' is the index of the respective class, numbered starting
at 1 (zero is background).
AUTHORS¶
Torsten Rohlfing, with contributions from Michael P. Hasak, Greg Jefferis,
Calvin R. Maurer, Daniel B. Russakoff, and Yaroslav Halchenko
LICENSE¶
http://www.fsf.org/licensing/licenses/gpl.html
BUGS¶
Report bugs at
http://nitrc.org/projects/cmtk/
ACKNOWLEDGMENTS¶
CMTK is developed with support from the NIAAA under Grant AA021697, National
Consortium on Alcohol and Neurodevelopment in Adolescence (N-CANDA): Data
Integration Component. From April 2009 through September 2011, CMTK
development and maintenance was supported by the NIBIB under Grant
EB008381.