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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swinkelbei
May 22, 2019 06:21PM
Hi AFNI experts,

I'm using 3dTrackID following the pipeline of a recent study with

3dTrackID \
-mode PROB \
-netrois parc300.nii.gz \
-prefix 3dTrackID_prob \
-dti_in 3dDWItoDT_ \
-uncert DWUncert+orig. \
-overwrite

The parc300.nii.gz was created with a Freesurfer annotation file with 300 parcels, extended into the WM and registered to the DWI image.
3dTrackID runs without a problem and creates a .grid file.
Including the lookup table for parc300.nii.gz shows that only a fraction of the labels is being used. For all the ROIs for which there is no label, simple numbers are returned.

What am I doing wrong?

I would be very grateful for some help!
Thank you,
Steph

The regions that are read out are selected based on the -netrois file. Is that correct?
How can I add
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Subject Author Posted

3dTrackID: .grid contains more ROIs than I entered

swinkelbei May 22, 2019 06:21PM

Re: 3dTrackID: .grid contains more ROIs than I entered

ptaylor May 22, 2019 08:46PM

Re: 3dTrackID: .grid contains more ROIs than I entered Attachments

swinkelbei May 23, 2019 05:48PM