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Computational Morphometry Toolkit (CMTK)

General Information

Module Type & Category

Type: CLI

Category: Registration, Segmentation, Artifact Correction

Authors, Collaborators & Contact

  • Torsten Rohlfing, (primary contact)
  • Michael P. Hasak

With contributions from:

  • Martin H. Rademacher
  • Calvin R. Maurer, Jr.
  • Daniel B. Russakoff

Module Description

CMTK is a collection of command line software tools for:

  • image registration: affine and nonrigid, pairwise and groupwise, single-channel and multi-channel
  • segmentation: atlas-based, levelset-like
  • artifact correction: intensity bias field, motion




Known bugs

Follow this link to the bug tracker at NITRC.

Source code & documentation

Source code and API documentation are available at NITRC.

The CMTK User Guide can also be downloaded from the Insight Journal.

More Information


CMTK is distributed under the GPLv3.


Supported by NIH-NIBIB R01 EB008381


A list of papers describing the algorithms implemented in CMTK is available here.

Papers using CMTK tools are listed here.