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Hi Gregorio,

You should be able to use mri_binarize to create masks from the hippocampal seg files https://secure-web.cisco.com/1qpMewyxfLa5R6eiYrzcf1qqqYJYO4CO0D3YKhBtxNKEZ97...

-Paul

On Mon, Jul 19, 2021 at 3:40 AM Gregorio Borghi < gregorio.borghi.uk@gmail.com> wrote:

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Dear sir/madam,

I have successfully segmented my participants' hippocampus thanks to "segmentHA_T2.sh" command, which provided me both right and left hippocampal segmented files. However, I was wondering if it is possible to obtain single files for each of the hippocampal subfields (e.g. CA1 and CA3) since I would like to use those files as masks and I need them to be distinguishable. Thanks in advance.

-- Kind regards, Gregorio _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://secure-web.cisco.com/1Ozt0tjAoon4wkd2Gvgt8DCEycnDDW6WrkDhaH6YfZ6Q4fe...