asegment_sri24 - Segmentation using SRI24 atlas

       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.

CMTK 3.3.1p2                                       Feb 26 2025                                 asegment_sri24(1)

       Torsten  Rohlfing,  with  contributions from Michael P. Hasak, Greg Jefferis, Calvin R. Maurer, Daniel B.
       Russakoff, and Yaroslav Halchenko

       Report bugs at http://nitrc.org/projects/cmtk/

       Register  a  target  image to a selected channel of the SRI24 human brain atlas, then reformat one of the
       atlas label maps to the target image. Note: it is assume that the target image is  skull-stripped,  i.e.,
       contains only the brain.

http://www.fsf.org/licensing/licenses/gpl.html

       asegment_sri24 - Segmentation using SRI24 atlas

GlobalToolkitOptions(thesearesharedbyallCMTKtools)--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).

   MainOptions--fast, -f
            Fast mode.

       --registration-channel
            The SRI24 channel used for registration to the target image.  Supported values: "spgr", "early-fse",
            "late-fse", "fa", where the default is "spgr", or use one of the following:

            --spgr
                 SPGR (T1-weighted) structural channel [Thisisthedefault]--early-fse
                 Early-echo (PD-weighted) fast spin echo channel

            --late-fse
                 Late-echo (T2-weighted) fast spin echo channel

            --fa Fractional anisotropy channel, derived from diffusion tensor images

       --label-map
            The  SRI24  label  map  that  is  reformatted  to the target image.  Supported values: "tzo116plus",
            "lpba40", "tissue", where the default is "tzo116plus", or use one of the following:

            --tzo116plus
                 Extended cortical parcellation template based  on  Tzourio-Mazoyer  AAL  116  region  template.
                 [Thisisthedefault]--lpba40
                 Template based on the 40 subject LONI Probabilistic Brain Atlas segmentation.

            --tissue
                 SRI24 maximum likelihood three compartment (GM, WM, CSF) tissue segmentation map.

asegment_sri24 TargetImage OutputImage