(Coregistration, Adjustment, and Tensor-solving, a Nicely Automated Program)
CATNAP (Coregistration, Adjustment, and Tensor-solving – a Nicely Automated Program) is an end to end data processing pipeline for Philips PAR/REC Magnetic Resonance data files. CATNAP performs motion correction for both diffusion and structural images using FSL FLIRT, adjusts the diffusion gradient directions for scanner settings (i.e., slice angulation, slice orientation, etc.) and motion correction (i.e., the rotational component of the applied transformation), and computes tensor and derived quantities (FA, MD, colormaps, eigenvalues etc) . The results are readily compatible with DTIStudio, FSL, and other tensor analysis packages.
Status: Public Release. Downloading constitutes acceptance of this license. Please download and retain for your records.
Platform: Matlab 7 (requires Signal Processing Toolbox)
Contact person: Bennett Landman
Mailing List/User Discussion Pages: CATNAP DTI Google Group
CATNAP Tutorial 1.0 (Special thanks to Dan Peterson!)
JAVA Source Code for dtiproc (Advanced Users Only: Not Supported Outside of CATNAP)
For Johns Hopkins and Kennedy Krieger Users on Godzilla or Kaiju:
Instructions_CATNAP_godzilla_users_v1_1.doc (updated 8/27/06)
Public Current Release:
Release 3.21 (released 4/20/2008)
· Removed: Preliminary release of CAMINO 2-tensor fitting
· (still too buggy for public release)
· Added support to override structural orientations to axial.
· jfarrell introduced savePARRECavw_forceAnatom2Axial.m
· (internal release) v3.20 March 17, 2008
· Preliminary release of CAMINO 2-tensor fitting.
· Added option to scale structural images.
· Added option to perform no motion correction (slow).
· Fixed a long standing problem with multi-echo structural scans
· where additional echos were "lost" during registration.
Publications about CATNAP:
A. Landman, Jonathan A. D. Farrell, Nera-Lee Patel, Susumu Mori, and Jerry
L. Prince, DTI Fiber Tracking: The
Importance of Adjusting DTI Gradient Tables for Motion Correction. CATNAP – A
Tool to Simplify and Accelerate DTI Analysis, Organization for Human
B. A. Landman, J. A. Farrell, S. Mori, P. C. van Zijl, and J. L. Prince, On the Coregistration of Diffusion Weighted Images, International Society for Magnetic Resonance in Medicine, Seattle Washington, May 2006
Publications using CATNAP:
Please let us know if you have found CATNAP to be helpful and let us see the interesting work you are doing.
J. A. Farrell, B. A. Landman, C. K. Jones, S. A. Smith, J. L. Prince, P. C. van Zijl, and S. Mori. “Effects of SNR on the Accuracy and Reproducibility of DTI-derived Fractional Anisotropy, Mean Diffusivity, and Principal Eigenvector Measurements at 1.5T”, Journal of Magnetic Resonance Imaging. 26(3): 756-767. August 2007.
B. A. Landman, J. A. Farrell, C. K. Jones, S. A. Smith, J. L. Prince, P. C. van Zijl, and S. Mori. “Effects of Diffusion Weighting Schemes on the Reproducibility of DTI-derived Fractional Anisotropy, Mean Diffusivity, and Principal Eigenvector Measurements at 1.5T”, NeuroImage. 36(4): 1123-1138. July 2007.
Bennett A. Landman, Annie X. Du, Wade D. Mayes, Jerry L. Prince, and Sarah H. Ying, Diffusion Tensor Imaging Enables Robust Mapping of the Deep Cerebellar Nuclei, Organization for Human Brain Mapping, Chicago, Illinois, June 2007
Annie X. Du, Bennett A. Landman, David S. Zee, Jerry L. Prince, and Sarah H. Ying, Diffusion Tensor Imaging Reveals Disease-Specific Dentate Nucleus Changes in Cerebellar Degeneration, Organization for Human Brain Mapping, Chicago, Illinois, June 2007
B. A. Landman, S. Mori, and J. L. Prince, Systematic Evaluation of Linear and Nonlinear DTI Estimation Methods: An Open Framework, International Society for Magnetic Resonance in Medicine, Berlin, Germany, May 2007
Last Updated: Tuesday, 27-May-2008 11:02:42 EDT
© Copyright 2006, Bennett Landman. All rights reserved.