AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

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Daniel Glen
March 01, 2011 03:51PM
The Diffusion plugin is from Larry Frank's group at UCSD. It does have ROI tractography capability in that you can generate seed and target regions from datasets. You will have to ask them for the latest version.

[csci.ucsd.edu]
[csci.ucsd.edu]

You can also use other tractography packages that read NIFTI-format tensor files like DTI-Query or TrackVis. See this for more information on DTI-Query with AFNI.

[afni.nimh.nih.gov]
[afni.nimh.nih.gov]

DTI-Query can compute tracts from a mask region with its precompute program, but it doesn't filter fibers from a generic volume, only a cube or a set of cubes. Mike Beauchamp's group got around that issue by creating a multiple cube version of a mask with a Matlab script. It also allows the saving of the tractography as volume with the intensity at each voxel corresponding to the number of fibers crossing through that voxel.

I don't have as much experience with TrackVis, but it does allow for various kinds of ROI masks as filters for fiber tracts.
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Subject Author Posted

Diffusion plugin questions

Steve February 27, 2011 10:34AM

Re: Diffusion plugin questions

Daniel Glen February 28, 2011 11:11AM

Re: Diffusion plugin questions

Steve March 01, 2011 03:33PM

Re: Diffusion plugin questions

Daniel Glen March 01, 2011 03:51PM