Dear Migueel Ángel, Which is the problematic subregion? Also: would you be able / willing to share a problematic case? Cheers, /Eugenio
-- Juan Eugenio Iglesias http://www.jeiglesias.com
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Miguel Ángel Rivas Fernández miguelrivasfdez@gmail.com Date: Thursday, March 6, 2025 at 11:52 PM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Hypothalamic subunits segmentation: volumes = 0
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Dear FreeSurfer devs,
I have tried to use the hypothalamic segmentation tool on my T1w data (voxel size = 1mm), but in in some subjects, one of the volume measurements of the structures is equal to 0. I have used the following command:
mri_segment_hypothalamic_subunits --i /home/user1/data/scans/ --o /home/user1/data/segmentations/ --vol /home/user1/data/hypothalamic_volumes.csv
I am using FreeSurfer version 8.0.0. Am I forgetting any important flag in the command? Any help to solve this issue would be appreciated.
Thank you very much for your time. Best, -- Miguel Ángel Rivas Fernández