Hi Indika,

you should be able to do this using the aparc+aseg.mgz volume and mri_binarize. What command line did you use and can you give us an example of the "spilling"?

cheers, Bruce

On Thu, 1 Apr 2010, Walimuni, Indika S wrote:

Hi FreeSurfer List Is their any way that I can generate cortical

and sub-cortical volume masks by using the surfaces generated by FreeSurfer. If I can could anyone give me the proper command. Apparently, The masks I already generated using mri_binarize command, are little bigger and spilling into the surrounding.

Thank you in advance, Truly, Indika Walimuni Research Associate University of Texas Health Science Center Houston, TX. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer