Hi Matthew

you could save the surfaces generated internally by mri_watershed with the -surf <surfname> option, compute the volume of the interior of that with mris_volume, then subtract out whatever other tissue classes you want using the aseg.

cheers Bruce

On Fri, 27 Jul 2012, Matthew Goldfinger wrote:

Dearest gurus of all things Freesurfer, I am looking for a simple way to quantify the amount of CSF, the total volume of brain matter (excluding ventricular space if possible) and, as a check on these two, the total intracranial area. Essentially I need a way to compare how much room there is for the brain to move around and deform. Any ideas on how best to achieve these goals would be most appreciated. Best, Matthew _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer