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avg_adm(1) The Computational Morphometry Toolkit avg_adm(1)


avg_adm - Average using ADM


avg_adm [options] list0 [list1 ...]


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


Global Toolkit Options (these are shared by all CMTK tools)

Write list of basic command line options to standard output.
Write complete list of basic and advanced command line options to standard output.
Write list of command line options to standard output in MediaWiki markup.
Write man page source in 'nroff' markup to standard output.
Write toolkit version to standard output.
Write the current command line to standard output.
Set verbosity level.
Increment verbosity level by 1 (deprecated; supported for backward compatibility).
Set maximum number of parallel threads (for POSIX threads and OpenMP).

Main Options

Label mode (as opposed to grey)
Set padding value in input files [Default: disabled]
Replace padding value in input files [Default: disabled]
Padding value for output file [Default: disabled]
Average Jacobian determinants of deformations.
Auto-scale image intensities
Output is 8 bits, signed [default: automatic]
Output is 8 bits, unsigned
Output is 16 bits, signed
Output is 16 bits, unsigned
Output is 32 bits signed
Output is 32 bits floating point
Output is 64 bits floating point

Exclude scale from statistical deformation model
Exclude reference coordinate frame from deformation model
Exclude reference data from averaging
Output file name [FORMAT:]path [Default: NONE]
Input file name for average warp [Default: NONE]
Output file name for average warp [Default: NONE]
Include affine component of first warp in output
Use nearest neigbor interpolation
Use tri-cubic interpolation
Replace from pattern
Replace to pattern


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



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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.

Jun 6 2022 CMTK 3.3.1p2