Hi,

I was trying to search old posts for some answers, but have not quite stumbled upon the right thing yet. This one seemed to be about the closest. I'm not an AFNI user, but am currently working with some people who are doing their fMRI work in AFNI. I have processed all of the freesurfer data for those same subjects, and what we now want to do is use the subject-specific segmentation generated in Freesurfer to extract activation information from the AFNI processing. As you've mentioned, while these freesurfer ROIs are in subject space they are not in alignment with the AFNI data. What is the best way to register my FS segmentations to the AFNI data so that it can be applied as a mask to extract activation values?

Thank you!!
Jenni Pacheco