Computational Morphometry Toolkit (CMTK)
The command line tools primarily provide the following functionality: registration (affine and nonrigid; single and multi-channel; pairwise and groupwise), image correction (MR bias field estimation; interleaved image artifact correction; EPI unwarping), processing (filters; combination of segmentations via voting and STAPLE; shape-based averaging), statistics (t-tests; general linear model).
CMTK is implemented in C++ with parallel processing using POSIX Threads (SMP), OpenMP (SMP), Grand Central Dispatch (SMP), and CUDA (GPU).
Supported file formats include Analyze (r/w), NIFTI (r/w), Nrrd (r/w), DICOM (read), BioRad (read). Data exchange with other toolkits, such as ITK, FSL, AFNI, SPM, etc. is thus easily accomplished.
Execution Options
Specifications
Associations
Recent Activity - Trackers
Linux tar distribution requires installation in /usr/local posted by Torsten Rohlfing on Apr 30, 2014
NIFTI qform and sform handled improperly posted by Torsten Rohlfing on Dec 3, 2013
Shear and anisotropic scales not correctly recovered from affine matrix posted by Torsten Rohlfing on Nov 27, 2013
find replacement for average_tool posted by Torsten Rohlfing on Sep 12, 2013
Presence/absence of FFTW threads lib is not tested posted by Torsten Rohlfing on Mar 11, 2013
stat64 does not exist on Cygwin posted by Torsten Rohlfing on Mar 11, 2013
FFTW not really optional for config/build posted by Torsten Rohlfing on Jan 11, 2013
Image position not correctly read from Siemens mosaic DICOM files posted by Torsten Rohlfing on Oct 2, 2012
gregxform should accept list of transformations posted by Torsten Rohlfing on Aug 24, 2012
image origin and axes directions not set from multi-slice DICOM files posted by Torsten Rohlfing on Aug 24, 2012
Recent Activity - Forums
RE: cmtk v. 3.3.2 compile issue posted by ktagen-sudo on Jun 15, 2023
RE: Segmentation fault posted by ktagen-sudo on Jun 15, 2023
cmtk v. 3.3.2 compile issue posted by ktagen-sudo on Jun 15, 2023
RE: Segmentation fault posted by Greg Jefferis on Jun 15, 2023
RE: Segmentation fault posted by Torsten Rohlfing on Jun 15, 2023
Segmentation fault posted by ktagen-sudo on Jun 14, 2023
Recent Activity - News
Maintenance release CMTK 3.3.1p1, source code only posted by Torsten Rohlfing on Jan 25, 2019
CMTK 3.3.0 Released posted by Torsten Rohlfing on Jan 22, 2016
CMTK 3.2.3 released posted by Torsten Rohlfing on Feb 2, 2015
CMTK 3.2.2 Released posted by Torsten Rohlfing on Aug 4, 2014
CMTK 3.2.0 posted by Torsten Rohlfing on May 7, 2014
CMTK 3.1.0 released posted by Torsten Rohlfing on Mar 3, 2014
CMTK 3.0 released posted by Torsten Rohlfing on Jan 10, 2014
CMTK 2.3.0 released posted by Torsten Rohlfing on May 17, 2013
CMTK 2.2 release adds new features posted by Torsten Rohlfing on May 8, 2012
CMTK 2.1.3 minor release posted by Torsten Rohlfing on Mar 9, 2012
Recent Activity - Files
CMTK-3.4.0-Source.tar.gz posted by Torsten Rohlfing on Mar 2
CMTK-3.3.2-Linux-x86_64.tar.gz posted by Torsten Rohlfing on Nov 7, 2022
CMTK-3.3.2-CYGWIN-x86_64.tar.gz posted by Torsten Rohlfing on Nov 7, 2022
CMTK-3.3.2-Linux-x86_64-devel.rpm posted by Torsten Rohlfing on Nov 6, 2022
CMTK-3.3.2-Linux-x86_64-core.rpm posted by Torsten Rohlfing on Nov 6, 2022
CMTK-3.3.2-Source.tar.gz posted by Torsten Rohlfing on Nov 6, 2022
CMTK-3.3.1-CYGWIN-x86_64.tar.gz posted by Torsten Rohlfing on Mar 15, 2017
CMTK-3.3.1-MacOSX-10.6-x86_64.dmg posted by Torsten Rohlfing on Feb 1, 2016
CMTK-3.3.1-Windows-AMD64.exe posted by Torsten Rohlfing on Jan 31, 2016
CMTK-3.3.1-Windows-AMD64.zip posted by Torsten Rohlfing on Jan 31, 2016
Funding: NIH-NIAAA U01 AA021697 (9/2012-7/2014)
NIH-NIAAA R01 AA005965-27S1 ARRA (6/2011-6/2012)
NIH-NIBIB R01 EB008381 (4/2009-9/2011)
Documents: 32
PubMed Mentions: 21
Forums: 832 messages in 1 forum
News Items: 17
Tracker: 0 open / 0 total
Total Downloads: 12977
Registered: Mar 27, 2009
NeuroDebian Package: cmtk
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