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
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