Dear Wei,
This is a visualization issue (rather than a processing issue).
Open your T2 first, and then your T1 on top, and there shouldn’t be any black blocks.
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 Wei Shao <wshao@research.baycrest.org>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Tuesday, February 23, 2021 at 16:49
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Hippocampus subfiled segmantation addtional scan
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Hi, Freesurfer experts
I used the Freesurfer7.1.0 version for the hippocampus subfield segmentation, and I use a coronal T2 scan as an additional to do the segmentation
.
I'm wondering that the reason for the two black blocks in the sagittal and axial view is because I only use the coronal T2 anat scan for the additional scan?
Can I add another axial scan for the T2 subfield segmentation without deleting anything (like hippocampal-subfields-T2.T2.log)? Thanks
Best,
Wei