Hi Max
we don't have a released version of a cerebellar reconstruction. We have messed around with doing so, but the issue is that the folia are *so* small, that at 1mm-ish resolution you miss a ton of them (and get topological defects, etc...).
As for the brainstem, we don't, but why would you want such a thing? Surface models are usually only useful for laminar structures.
cheers Bruce
On Sat, 2 Mar 2019, Max Crayen wrote:
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Dear all, I ran recon-all with my dataset and I am pretty satisfied with the cortical reconstruction of both hemispheres. Unfortnuately, there was no Cerebellar reconstrucion. Is there any way to also get a surface reconstruction of the cerebellum with recon-all or is there even a seperate command for that? I tried to do it with mri_tessellate /mri/aseg.mgz 8 /lh_cerebellum.gii mri_tessellate /mri/aseg.mgz 47 /rh_cerebellum.gii and also with mri_vol2surf --mov /mri/aseg.mgz --hemi lh --surf cerebellum --mni152reg --o /lh_cerebellum.gii but both times the created .gii file seems to be empty. I read myself through many Archive threads and the freesurfer wiki, but since I am not using freesurfer regularly, I do not know what else I could do. And if a surface reconstruction is possible for the cerebellum, is it also possible for the brain stem? Thanks alot in advance! Best regards, Max Crayen