Are you saying that synthseg itself is generating the wrong seg or that
something is going wrong further downstream? The recon-all stream with
synthseg is not a supported pipeline at the moment. For the standard
stream, can you send the full recon-all.log file?
On 1/29/2024 2:04 PM, Maya
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Hello,
I am running freesurfer v7.3.2 reconall with -synthseg on a pediatric sample,
and for one specific subject I keep getting a lot of gray matter classified as
white matter, which leads to the ?h.white surfaces being too close to the pial
