Having difficulty with how to use label2label for this purpose. Just need a binary mask of medial wall (vertex number and 0 or 1s) on native surface. What's would this command be?

On Jan 28, 2020 5:42 PM, "Greve, Douglas N.,Ph.D." <DGREVE@mgh.harvard.edu> wrote:

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Do you mean you want a binary mask of the medial wall?
You can create a mask of the cortical label (?h.cortex.label) with mri_label2label
You can then invert that with something like
fscalc lh.cortex.mask.mgz not -o lh.medialwall.mask.mgz

On 1/28/2020 6:31 PM, Alexopoulos, Dimitrios wrote:
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Is there a freesurfer file that contains metric info that delineates the medial wall in the native surface output for an individual?

It appears to be associated with the ?lh.aparc.annot file (below).

I’d like to be able to export the medial wall metric into Worbench.

Thanks.

Jim

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