You would want to edit the wm.mgz to fill the ventricles in if the surfaces are not accurate. So from your picture, I would say the surfaces do not look accurate in the right hemisphere since they are being pulled into the ventricle. Allison

On Tue, 15 Jul 2008, Dorit Kliemann wrote:

Hi,

I recently started using freesurfer and finally processed my first subjects with all three recon steps (using the latest version).

Checking the white matter volume I recognized that all my scans have the same issue: The lateral ventricles aren't filled entirely but there are some black spots within the ventricles..in the tutorial is written that one should handle this in a described way but I was wondering if this is necessary when recon3 was sucessful without any errors.....

Does anyone have experience with that? (see attached picture)

Thanks a lot, Dorit Kliemann