Hi Ariel,

I second Bruce; we don't have a pipeline to directly measure the subfield thickness. We have, however, tried an indirect volumetric method to compute the thickness (http://nmr.mgh.harvard.edu/~koen/IglesiasNI2014.pdf, the "Experimental setup" section). It requires a (preferably soft) segmentation of each subfield, parameter tuning, and skeleton computation for reading the thickness values. So if you're willing to try it in spite of it not being so straightforward, I'm happy to share the tissue thickness measurement codes.

Best, Iman

-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl Sent: Thursday, August 10, 2017 10:26 AM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Hippocampus subfield

no, not really

sorry Bruce On Thu, 10 Aug 2017, Lin, Yizhi wrote:

Dear experts in Freesurfer, I am doing analysis on hippocampus subfield and I'm wondering if I could obtain cortical thickness data from each segmentation? Thanks so

much!

Best,

Ariel

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