You can use mri_binarize with the --match option to specify the code for the subfield you want a mask of. These codes can be found in $FREESURFER_HOME/FreeSurferColorLUT.txt

doug

Shashwath Meda wrote:

Hi all - What would be the best way to create ROI masks of the individual hippo subfields that are generated in Freesurfer?

Thanks!

Shashwath Meda

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