Man page - cmtk-avg_adm(1)

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cmtk

Manual

avg_adm(1)

The Computational Morphometry Toolkit

avg_adm(1)

NAME

avg_adm - Average using ADM

SYNOPSIS

avg_adm [options] list0 [list1 ...]

DESCRIPTION

Compute average-shape average-intensity images and deformation maps using an active deformation model.

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

--label, -l: Label mode (as opposed to grey)
--set-padding <float>: Set padding value in input files [Default: disabled]
--replace-padding <float>: Replace padding value in input files [Default: disabled]
--pad-out <double>, -p <double>: Padding value for output file [Default: disabled]
--jacobian, -j: Average Jacobian determinants of deformations.
--auto-scale, -a: Auto-scale image intensities
--char: Output is 8 bits, signed [default: automatic]
--byte: Output is 8 bits, unsigned
--short: Output is 16 bits, signed
--ushort: Output is 16 bits, unsigned
--int: Output is 32 bits signed
--float: Output is 32 bits floating point
--double: Output is 64 bits floating point
--no-scale-model, -S: Exclude scale from statistical deformation model
--no-ref-model, -R: Exclude reference coordinate frame from deformation model
--no-ref-data, -r: Exclude reference data from averaging
--output <string>, -o <string>: Output file name [FORMAT:]path [Default: NONE]
--input-warp <string>, -I <string>: Input file name for average warp [Default: NONE]
--output-warp <string>, -O <string>: Output file name for average warp [Default: NONE]
--with-affine, -A: Include affine component of first warp in output
--nn: Use nearest neigbor interpolation
--cubic: Use tri-cubic interpolation
--replace-from <string>: Replace from pattern
--replace-to <string>: Replace to pattern

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.

Feb 26 2025

CMTK 3.3.1p2