On Mon, 9 Jul 2007, Sebastian Moeller wrote:
Hi,
not being an expert, please take my rambling with a grain of salt. But I am somewhat curious to learn better ways ;)
On Jul 9, 2007, at 11:03 PM, [EMAIL PROTECTED] wrote:
Message: 9
Date: Mon, 9 Jul 2007 17:01:42 -0400
From: "Wang, Xin" <[EMAIL PROTECTED]>
Subject: [Freesurfer] add the gray matter
To: "freesurfer" <
freesurfer@nmr.mgh.harvard.edu>
Message-ID:
<[EMAIL PROTECTED]>
Content-Type: text/plain; charset="iso-8859-1"
Hello, Group
I need to edit the pial surface. I learned to remove points with tkmedit from the tutorial. But how to add gray matter in the pial surface?
1) If you have nothing where gray matter should be, then check brainmask.mgz, if this is missing gray matter, around where your problems occur edit the bainmask.mgz volume and pick up your reconstruction from there. (IIRC there is something in the tutorial about this) 2) If there is white matter where gray matter should be, be sure to to check nu.mgz and brainmask.mgz at the critical parts for too high intensity in the supposed gray matter. Either control points might helo (unlikely) or redoing the intensity correction (and then starting again from that point). At least for my data, acquired with surface coils, sub-optimal intensity correction is really annoying.
ahoi & good luck
Sebastian
Thank you in advance.
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End of Freesurfer Digest, Vol 41, Issue 13
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