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

History of AFNI updates  

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May 12, 2015 09:26AM
There is an output text file with extension '.grid' that contains mean and standard deviation of lots of standard quantities for each traced WM region.

If your 3dTrackID command had '-prefix OUTPUT', then the the file would be called 'OUTPUT_000.grid'. It contains matrices of structural properties (including mean FA values of each tracked region). You can open and view it in any standard text editor.

You can also view it in SUMA:
$ suma -dset OUTPUT_000.niml.dset
or from the commandline with fat_mat_sel.py (this will make colorbar between 0 and 1, show the graph until you close it/hit a key in the terminal, and then also save the image):
$ fat_mat_sel.py --matr_in 'OUTPUT_000.grid' --Pars 'FA'     \
            -A 0 -B 1 --Hold_image --out_ind_matr

See 'fat_mat_sel.py -h' for more help/options.

--pt
Subject Author Posted

How to make multibrick ROI for 3dTrackID?

leetaey May 12, 2015 12:48AM

Re: How to make multibrick ROI for 3dTrackID?

ptaylor May 12, 2015 04:27AM

Re: How to make multibrick ROI for 3dTrackID?

leetaey May 12, 2015 08:35AM

Re: How to make multibrick ROI for 3dTrackID?

ptaylor May 12, 2015 09:26AM

Re: How to make multibrick ROI for 3dTrackID?

leetaey May 30, 2015 09:23PM

Re: How to make multibrick ROI for 3dTrackID?

ptaylor June 01, 2015 04:49PM

Re: How to make multibrick ROI for 3dTrackID?

leetaey June 01, 2015 06:34PM

Re: How to make multibrick ROI for 3dTrackID?

ptaylor June 02, 2015 06:42AM

Re: How to make multibrick ROI for 3dTrackID?

leetaey June 03, 2015 10:14AM

Re: How to make multibrick ROI for 3dTrackID?

ptaylor June 03, 2015 01:44PM

Re: How to make multibrick ROI for 3dTrackID?

leetaey June 10, 2015 11:20PM

Re: How to make multibrick ROI for 3dTrackID?

ptaylor June 10, 2015 11:55PM