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
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