Hi Martin,

probably because of a topological defect there. What does the orig surface look like? If it doesn't match the wm.mgz volume then you should manually edit the wm volume to correct the segmentation problem.

On Mon, 20 Mar 2006, Martin Ystad wrote:

Hi, I have some problems with the white matter segmentation on some of my brains. the Main-surface cuts into the white matter in certain bright areas. I tried to fix this by adding control points to the area. Then I ran recon-all -autorecon2-cp again, but this didn't resolve the problem. Any Ideas ? I've attached a picture of the problem.

Thanks,

Martin Ystad University of Bergen, Norway.