Yes, you will need to choose an index and then pass the color table to mri_segstats with --ctab to make sure it appears in the output.

On 8/4/17 10:25 AM, Bruce Fischl wrote:

Hi Rotem

sorry, we don't label the pineal gland, but yes you can label it in the volume yourself using freeview. I think if you add it to the color lut file it will be included in the stats, but perhaps Doug can comment Bruce

On Fri, 4 Aug 2017, Rotem Saar wrote:

...

Dear Freesurfer experts,

I wondered if its possible to extract the volume of the pineal gland using the basic cortical + sub-cortical segmentation (recon-all)?

I could not find the volume of this ROI in the output.

If the volume output for this ROI is available - please guide me where to look (maybe I missed it?)

If not - does manual ROI drawing and following,volume calculation is possible using freesurfer?

Thanks !

Rotem Saar-Ashkenazy

Department of Brain and Cognitive Science Ben Gurion University of the Negev, Beer-Sheva, 84105

School of Social Work Ashkelon Academic College, Ashkelon, 78211

Israel

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