The entire hippocampus is currently labeled by default in the recon-all stream. You can see it in the aseg.mgz (in the mri directory) and find volume information in stats/aseg.stats.
To get the hippocampal subfields you have to run recon-all with an additional flag. This is documented here:
https://surfer.nmr.mgh.harvard.edu/fswiki/HippocampalSubfieldSegmentation
Allison
On Tue, 19 Nov 2013, Gregg, Brian E. wrote:
Hello,
I didn’t see hippocampus listed in the Desikan-Killiany, Destrieux, or DKTatlas40 atlases. Is there an existing atlas that contains the hippocampal subfields? If not, what options exist for getting the hippocampus into an atlas?
Thank you,
Brian
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer