Re: [Freesurfer] Need Help with one dataset

Hi Darshan

sounds like something pretty big is wrong. If you upload the dataset we'll take a look Bruce

On Tue, 9 Oct 2012, Darshan P wrote:

I have one MRI and I run freesurfer on it . It runs through completely . When I see the output though , the surface does not include a huge part of the temporal lobe. I looked at the brain mask, and the deskulling is perfect. But the wm.mgz does not include temporal regions and hence the surface drops off much before it reaches the temporal lobe. This also affects the pial surface.

I tried to manually add some voxels in the wm.mgz without success. I read some slides which talk about changing the brainmask, but as I said before the brain mask is perfect.

Not sure what else I can do ?

Regards DP