Hi Nick, Why do you use 128 as the value for mri_tessellate in your suggestion below? Should this value be used for all ROIs, regardless of hemisphere?
Thank you, Liz Selgrade -----Original Message----- From: Nick Schmansky [mailto:ni...@nmr.mgh.harvard.edu] Sent: Wednesday, September 16, 2009 3:16 PM To: Douglas N Greve Cc: Elizabeth Selgrade; 'freesurfer@nmr.mgh.harvard.edu' Subject: Re: [Freesurfer] Surface area of subcortical structures or use mri_extract_label instead of mri_binarize, like this, to get the left hippocampus: mri_extract_label aseg.mgz 17 lh.hippo.mgz mri_tessellate lh.hippo.mgz 128 lh.hippo.unsmoothed mris_smooth lh.hippo.unsmoothed lh.hippo mris_info lh.hippo |& grep total_area this seems to work. '17' is the index for left hippocampus, as found in $FREESURFER_HOME/FreeSurferColorLUT.txt Nick On Wed, 2009-09-16 at 15:05 -0400, Douglas N Greve wrote: > There's not an easy way. You could binarize the structure > (mri_binarize), then build a surface around it (mri_tessellate), maybe > smooth it (mris_smooth), then compute the surface area (mris_info). > This would be a completely untested method though:). > > Elizabeth Selgrade wrote: > > Hello, > > > > Is there a way to get the surface area of FreeSurfer subcortical structures? > > > > Thanks, > > Liz Selgrade > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
