GVF   Software Matlab (2D Version)

We have put together a collection of matlab *.m files that will compute GVF and run a GVF snake (and several traditional snakes) on 2-D images. These files are not guaranteed to work on your machine and are not supported; however, they may be instructive and fun to play with. You can draw your own contour and watch it deform to its final configuration. The 2-D demonstrations above were generated using this software.

GVF for Unix, tested with Matlab version 4.2c (updated version, 9/29/99)

GVF for Windows 95/NT, tested with Matlab version 5 (updated version, 9/29/99)

Graphical GVF Snake Demo for Windows 95/98/NT, tested with Matlab version 5.

C version of GVF code for Matlab (CMEX) replaces GVF.m and is significantly faster. (new)

NOTE: for those who downloaded GVF software before 9/29/99, you can update the previous GVF software by downloading the MATLAB routines below and placing them under the "snake" directory of the GVF software: GVF.m, uppertri.m, BoundMirrorExpand.m, BoundMirrorEnsure.m, and BoundMirrorShrink.m.

MIPAV (3D Version)

A 3D implementation of the Generalized Gradient Vector Flow Algorithm is also available as a MIPAV plugin. This work was supported by NIH Grant 1 R01 NS054255-01.

Some demo animations generated by CRUISE.

ViPAR (Visualization, Paint, Allignment and Rotation) is a MRI visualization and manipulation tool that enables real-time 3D transformation of MR volumes and delineation of regions of interest on arbitrary planes. It is available as a plugin to MIPAV.

For citations please use: Bennett A. Landman, Shwetadwip Chowdhury, Alexander H. Sinofsky, Andrew S. K. Liu, Susumu Mori, David S. Zee, Jerry L. Prince, and Sarah H. Ying, "Delineation of Cerebellar Fiber Tracts on Anatomically Aligned Planes with ViPAR, a Novel MRI Visualization and Manipulation Tool", HBM, Organization for Human Brain Mapping, Florence, Italy, June 2006.

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.

For citations please use: Landman BA, Farrell JAD, Jones CK, Patel N, Prince JL, "CATNAP (Coregistration, Adjustment and Tensor-solving, a Nicely Automated Program)", release 2.1 (2006).