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filter(1) The Computational Morphometry Toolkit filter(1)


filter - Filter a volume image


filter [options] input output filter [options] [-s,--studholme] input output average subject img0 [img1...] filter [options] [-R,--rohlfing] input output subject


This tool applies spatial filtering operators, including cnotent-sensitive opersators, based on selective Gaussian kernels.


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

Gaussian filter width (sigma) [Default: disabled]
Filter radius (truncated outside) [Default: 2]
Binary mask file name [Default: NONE]
Use Studholme's consistent filtering
Intensity bin width for consistent filtering [Default: 10]
Use Rohlfing's single-image consistent filtering
Intensity gaussian sigma for consistent filtering [Default: 0]

Image/Transformation Database

Path to image/transformation database that should be updated with the newly created image. [Default: NONE]


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



Report bugs at


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.

Jul 7 2024 CMTK 3.3.1p2