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cmtk-sba - Online in the Cloud

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This is the command cmtk-sba that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

PROGRAM:

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


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
--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

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