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If you’re only/mostly interested in the hippocampus, I’d encourage you to try the subfield module 😉
Juan Eugenio Iglesias
Senior research fellow
CMIC (UCL), MGH (HMS) and CSAIL (MIT)
From:
<freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of "Jindal, Saurabh" <jindals@wustl.edu>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Tuesday, April 20, 2021 at 11:39
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Hipppocampal segmentation on freesurfer
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Hi Eugenio,
This is recon-all (aseg.mgz), and not the subfields. Thanks
Saurabh
From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Iglesias Gonzalez, Juan E. <JIGLESIASGONZALEZ@mgh.harvard.edu>
Sent: Tuesday, April 20, 2021 10:36 AM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Hipppocampal segmentation on freesurfer
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Dear Saurabh,
Is this recon-all (aseg.mgz), or the hippocampal subfield module?
Cheers,
/Eugenio
Juan Eugenio Iglesias
Senior research fellow
CMIC (UCL), MGH (HMS) and CSAIL (MIT)
From:
<freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of "Jindal, Saurabh" <jindals@wustl.edu>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Tuesday, April 20, 2021 at 11:30
To: freesurfer <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Hipppocampal segmentation on freesurfer
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Hi experts,
I am working on freesurfer 7.1 now and my ROI is hippocampus, but it seems that there is some non-hippocampal inclusion in the form of choroid plexus and adjacent peri-ventricular white matter. Do we have a standard cutoff criterion for hippocampal inclusion? Like how many voxels for how many slices is okay to let it pass?
Saurabh
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