NAME¶
sba - Shape-based Averaging of label images
SYNOPSIS¶
sba InputImageVector
DESCRIPTION¶
Average segmentations (label fields) using the Euclidean Distance Transform. All
input images must be in the same space. EDT is computed in this space also.
See
http://dx.doi.org/10.1109/TIP.2006.884936 for details of the underlying
algorithm.
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.
- --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).
- --num-labels <integer>, -n
<integer>
- Number of labels. It is assumed that only values [0..num] occur in the
images [Default: 0]
- --padding <float>, -p <float>
- Padding value in input image [Default: disabled]
Label Combination Options¶
- --exclude-outliers, -x
- Exclude local outliers in the shape-based averaging algorithm. Outliers at
each pixel are defined as those input images for which the distance from
the nearest pixel with the current label exceeds thresholds computed from
the set of distances over all inputs.
Output Options¶
- --output <string>, -o
<string>
- File name for output segmentation file. [Default: sba.nii ]
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.