http://code.google.com/p/princeton-mvpa-toolbox/
The MVPA Toolbox is a set of Matlab tools to facilitate multi-voxel pattern analysis of fMRI neuroimaging data.
The aim is to create a set of open source functions in a widely-used language to facilitate exploration of multi-voxel pattern analysis techniques and to reduce the ‘startup costs’ for knowledgeable users eager to apply pattern classification algorithms to their imaging data. By developing the toolbox in the Matlab environment, users are able to take advantage of the vast array of existing functions. The data structures used and generated by the toolbox are designed to facilitate exploration and further script development.
MRtrix: MR tractography including crossing fibres (http://www.brain.org.au/software/index.html)
MR tractography using constrained spherical deconvolution (CSD) and probabilistic streamlines
Useful to drastically improve the spatial resolution of the fiber tracks given the standard diffusion-weighted images compared to the conventional diffusion-tensor based tractography
Neuroimage. 2007 May 1;35(4):1459-72. Epub 2007 Feb 21.
Robust determination of the fibre orientation distribution in diffusion MRI: non-negativity constrained super-resolved spherical deconvolution.
Tournier JD, Calamante F, Connelly A.
Brain Research Institute, Melbourne, Australia. d.tournier@brain.org.au
http://www.ece.unm.edu/~vcalhoun/mialab/Software/
such as GIFT, and simtb (coming)