cmtk-lmsba1
Local voting.
Usage
lsba [options]
targetImage
atlasIntensity1
atlasLabels1
[atlasIntensity2
atlasLabels2
[]]
Overview
This tool combines multiple multi-class segmentations from co-registered and reformatted atlases using locally-weighted Shape-Based Averaging.
Options
Global Toolkit Options (these are shared by all CMTK tools)
-
--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).
Input Options
-
--set-padding-value <double> -
Set padding value for input intensity images. Pixels with this value will be ignored. [Default: disabled]
Label Combination Options
-
--patch-radius <none> -
Radius of image patch (in pixels) used for local similarity computation. [Default: 5]
-
--search-radius <none> -
Search radius for local image patch matching. The algorithm finds the best-matching patch within this radius by exhaustive search. [Default: 0]
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--no-local-outliers -
Detect and exclude local outliers in the Shape Based Averaging procedure.
-
--no-global-outliers -
Detect and exclude global outliers by removing poorly correlated atlases prior to local SBA procedure.
Output Options
-
--output <string>, -o <string> -
File system path for the output image. [Default: lsbo.nii ]
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.
Releases
7 releases since Debian 7 (Wheezy); the text changed 6 times.