You have to run recon-all on your T1-weighted image (see the tutorials on the wiki), then run the hippo/amyg segmentation as found here https://surfer.nmr.mgh.harvard.edu/fswiki/HippocampalSubfieldsAndNucleiOfAmy...

On 10/13/2020 12:32 PM, Elena Aggius-Vella wrote:

External Email - Use Caution

Dear freesurfer,

This is Elena Aggius Vella. I'm writing to ask for your help. I need to do amygdala segmentation based on anatomy.... I see freesurfer has a nice tool to do it, but i'm new in freesurfer. Is it possible to have any help on this?

many many thanks elena

---

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer