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Hi Eugenio,

I tried running the tool on three subjects:

- In one, it shows 0 in the right anterior-inferior and right anterior-superior - In another, it shows 0 in the left anterior-inferior and right anterior-inferior - In the third one, it didn't fail

Best,

Miguel

El vie, 7 mar 2025 a las 6:49, Iglesias Gonzalez, Juan E. (< JIGLESIASGONZALEZ@mgh.harvard.edu>) escribió:

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://secure-web.cisco.com/1TRGBg7QLsFVr-nt43t1mjVceuIHkl-NyZh6ssorGKcZPD5J...

*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*

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