Hi Clara
are you sure you put the control points in the interior of the WM? If you
want to upload the subject we will take a look
cheers
Bruce
On Mon, 29 Jun 2015, Clara
Kühn wrote:
Dear Freesurfer experts,
I've had this problem now a couple of times: after setting a few (in this case
2) control points and rerunning the recon-all process with the -cp flag I get
huge areas of white matter including the subcortical areas and lots of the
cortical ribbon. See attached picture.
Could you explain how this happens because the logfile says it ran without
error. In these cases I've deleted the whole thing and preprocessed the scan
from scratch. I was wondering if there's a better way to deal with this like
going a step back if that's possible.
Cheers,
Clara Kühn
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