hmm, this almost never fails anymore. What does the aseg look like? Did it label things correctly? Is the skull stripping ok?

Bruce On Mon, 18 May 2009, Falk Lüsebrink wrote:

Hi FreeSurfers,

At the end of mri_fill I’m told to check the filled volume as the cerebellum may be included. It is and also the brainstem. But actually I don’t know how to fix this. Do I need to include the seed points for cc and pons for better cutting planes? Do I need to manually edit the volume?

If the latter is better are there any other tools available besides tkmedit? If I try to add or delete voxels of a high resolution volume tkmedit seems to skin every second slice.

Regards,

Falk