The final recon process, autorecon3 - uses "ASegStatsLUT.txt" by default to segment certain subcortical structures listed within this textfile.

On the otherhand, FreeSurferColorLUT.txt has labels for more subregions, including the substancia nigra which is a region of interest for a particular project we are doing here.

The Aseg. output does not label or calculate the volume of the substancia nigra and I was wondering if there is a way to do this?

cheers


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