It is changing with each subject because each subject's brain is different, and you can't get a subject-specific mask from fsaverage5. Can you load all your data into matlab and then compute a mask based on non-zero voxels?
On 9/28/16 1:57 PM, Dorothy Sincasto wrote:
Hi freesurfers,
I am doing a connectivity analysis on cortical areas. I load the 2d fmri surface file in fsaverage5 space into matlab and I get 20484 vertices for both hemispheres. Some of which are zero because I previously specified to get only the cortex vertices. However, the number of non-cortex vertices changes across subjects.
Is it possible to get from fsaverage5 any overlay mask that specifies if it is cortical or not, so when I load it into matlab i can get a logical vector of 20484 elements?
Thanks Dorothy
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer