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Dear Eugenio,

I have uploaded the subject as file hippocampal_subfields_labeling.tar.gz to your server surfer.nmr.mgh.harvard.edu.
RAS coordinates of the unlabeled area are -31,-27,-9.
Thank you in advance,

Antonin



Dear Antonin,
It is difficult to see what’s going on in the images you sent. Would you mind 
uploading the subject, or at least sending us the image without the 
segmentation overlaid (and ideally, a sagittal view as well)?
Cheers,
/Eugenio

--
Juan Eugenio Iglesias
Senior research fellow
CMIC (UCL), MGH (HMS) and CSAIL (MIT)
http://www.jeiglesias.com


From: <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Antonin Skoch 
<a...@ikem.cz>
Reply-To: Antonin Skoch <a...@ikem.cz>, Freesurfer support list 
<freesurfer@nmr.mgh.harvard.edu>
Date: Tuesday, 2 July 2019 at 21:43
To: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Doubts in hippocampal subfields labeling


        External Email - Use Caution
Dear experts,

I noticed that systematically in most of my subjects there is area in 
hippocampal region, labeled in aseg as hippocampus, but NOT labeled as 
hippocampus in hippocampal subfields segmentation (it has zero value there).
See screenshots with norm.mgz overlaid by 1) aseg, 2) hippocampal subfields 
segmentation.

According to T1 and T2 signal, it should neither be white matter and also 
probably not a ventricle/CSF. Neocortex is not located here.
It has similar signal intensity as hippocampus, so I think that it should be 
hippocampus, but I am puzzled by hippocampal subfields segmentation results 
there. Why it is not labeled?

Could you please help me to clarify this? My concern is to correctly label this 
area.
I could upload the example subject if it is of any help.

Regards,

Antonin Skoch