What areas are these where the pial is not extended enough?

In general, the pial surface might extend further if the white surface is extended further but you would only want to do that if wm was also being left out of the white surface.

On Tue, 14 Jul 2009, Devdutta W wrote:

Hi,I have been trying to figure out how to get freesurfer to select more of the grey matter than it does after running recon-all with autorecon2 option. I feel that there are portions of the grey matter in some of our images that are not being selected as indicated by the red outline of the pial matter. Is it possible to do that? I appreciate any help in this matter.

Regards, Devdutta