xenial (1) cmtk-xform2dfield.1.gz

NAME

       xform2dfield - Transformation to Deformation Field

SYNOPSIS

       xform2dfield OutputPath ReferenceImage XformList

DESCRIPTION

       Convert parametric rigid or nonrigid transformation to deformation field, sampled at pixel locations of a
       given reference image

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).

   Main Options
       --mask, -m
            Use reference image pixels as a binary mask.

       --target-image-fsl <string>
            Path to optional target image to be used in FSL. This is the image that the transformation (and thus
            the  created  deformation  field)  maps  to. When creating a deformation field to be used with FSL's
            "applywarp" tool, is may be necessary to  determine  whether  the  x  coordinate  of  the  resulting
            deformation vectors has to be flipped.  [Default: disabled]

       --inversion-tolerance-factor <double>
            Factor  for  numerical  tolerance  of  B-spline  inversion  [multiples  of  minimum grid pixel size;
            default=0.1] [Default: 0.1]

       --downsample <string>
            Downsample grid by factors 'x,y,z' or by single factor 'xyz' [Default: NONE]

       --output-absolute
            Make output deformation field with absolute target location vectors,  rather  than  relative  offset
            vectors.

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.