---
name: "cmtk-statistics"
section: "1"
platform: "linux"
package: "cmtk"
version: "3.3.1p2+dfsg-3"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/cmtk-statistics"
---

# cmtk-statistics(1)

Image statistics

## NAME

statistics - Image statistics

## SYNOPSIS

statistics \[options\] ImageFile0 \[ImageFile1 ...\]

## DESCRIPTION

Statistical computations on image pixel intensities, i.e., means and standard deviations

## 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**

  Interpret voxel values as labels

- **--gray**, **-g**

  Interpret voxel values as gray values (default) **\[This is the default\]**

- **--log**, **-L**

  Apply log() function to data

- **--exp**, **-e**

  Apply exp() function to data

- **--num-bins** *\<integer\>*, **-n** *\<integer\>*

  Number of histogram bins. **\[Default: 256\]**

- **--column**, **-C**

  Write statistics in column format rather than line format.

- **--e-notation**, **-E**

  Write floating point numbers in #e# notation (i.e., 1e-3 instead of 0.001)

- **--mask** *\<string\>*, **-m** *\<string\>*

  Analyze region based on binary mask file **\[Default: disabled\]**

- **--Mask** *\<string\>*, **-M** *\<string\>*

  Analyze regions separately based on mask file (label field). **\[Default: NONE\]**

- **--mask-output-all-up-to** *\<integer\>*

  Output results for all mask values up to given value, even such that do not actually appear in the mask. **\[Default: 0\]**

- **--percentile** *\<double\>*, **-p** *\<double\>*

  Add value to list of percentile to compute.

## 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.