groupwise_init(1) Affine initialization for groupwise registration

SYNOPSIS

groupwise_init [options] image0 [image1 ...]

DESCRIPTION

Compute initial affine alignment for a group of input images, which can be used as an input for groupwise registration

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

--template <string>, -t <string>
Input filename for pre-defined template image. [Default: NONE]
--output-root <string>, -O <string>
Root directory for all output files. [Default: NONE]
--output <string>, -o <string>
Output filename for groupwise registration archive. [Default: groupwise.xforms]
--output-average <string>
Output filename for registered average image. [Default: average.nii]
--average-cubic
Use cubic (rather than linear) interpolation for average image.
--no-output-average
Do not write average image.
--align-centers-of-mass
Initially align centers of mass rather than centers of bounding boxes.
--init-scales
Initialize scale factors using first-order moments
--center-template
Center aligned images in template grid field of view.

AUTHORS

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

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.