cmtk-average_images (1)

average_images [options] image0 ...

This tool computes pixelwiase average, variance, standard deviation, z-score, or entropy images from a list of user-provided intensity images.

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

--mode

Mode of averaging operation Supported values: "avg", "var", "stdev", "zscore", "entropy", where the default is "avg", or use one of the following:

--avg

Compute average (i.e., mean) image [This is the default]

--var

Compute variance image

--stdev

Compute standard deviation image

--zscore

Compute z-score image

--entropy

Compute pixel-by-pixel population entropy image

Data Preprocessing

--log, -l

Apply log to input data

--abs, -a

Use absolute input values

--normalize-mean-stdev, -n

Normalize image intensities using means and standard deviations

--set-padding-value <double>

Define padding value in input images [Default: disabled]

Output Options

--outfile-name <string>, -o <string>

Output file name [Default: average.nii ]

--type

Scalar data type of output image. Supported values: "float", "double", where the default is "float", or use one of the following:

--float

Single-precision float. [This is the default]

--double

Double-precision float.

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

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

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

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.