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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Peter Molfese
October 28, 2015 11:35AM
Once you have labels created in Freesurfer, you just need to convert them to GIFTI format (or NIFTI if it's a volume). So if I wanted to take BA45 from the fsaverage to an individual subject and convert it to GIFTI (.gii), I could do something like this: 

mri_label2label --srcsubject fsaverage \
--srclabel fsaverage/label/lh.BA45.label \
--trgsubject Subject1 \
--trglabel Subject1/label/lh.BA45.label \
--hemi lh \
--regmethod surface

mris_convert --label Subject1/label/lh.BA45.label BA45 Subject1/surf/lh.white lh.BA45.label.gii


From this point, the main program you need is @SUMA_Make_Spec_FS. I would suggest running it with the -GIFTI flag. You can then open the surfaces in SUMA and overlay the GIFTI ROI (formerly label): 

suma -spec Subject1/SUMA/Subject1_both.spec -sv Subject1/SUMA/Subject1_SurfVol.nii

Then use Control-S to bring up surface controller, click Load Dset and select lh.BA45.label.gii.



Edited 1 time(s). Last edit at 10/28/2015 11:38AM by Peter Molfese.
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Subject Author Posted

SUMA to FreeSurfer

rmruczek July 23, 2014 04:00PM

Re: SUMA to FreeSurfer

rick reynolds July 24, 2014 03:31PM

Re: SUMA to FreeSurfer

kayzee October 27, 2015 10:55PM

Re: SUMA to FreeSurfer

Peter Molfese October 28, 2015 11:35AM