Hi Michael,
This method seems cool. I'll try to implement it. Thank you so much.
Best, Cherry
On Wed, May 22, 2013 at 4:17 PM, Harms, Michael mharms@wustl.edu wrote:
I've also posted in the past on a set of "expert options" that helped our surfaces in the temporal lobe considerably. You should be able to locate that post in the archives.
-- Michael Harms, Ph.D.
Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave. Tel: 314-747-6173 St. Louis, MO 63110 Email: mharms@wustl.edu
From: Yizhou Ma ym850@nyu.edu Date: Wednesday, May 22, 2013 2:30 PM To: Bruce Fischl fischl@nmr.mgh.harvard.edu Cc: freesurfer freesurfer@nmr.mgh.harvard.edu, Chris Watson < Christopher.Watson@childrens.harvard.edu>
Subject: Re: [Freesurfer] temporal lobe left out in pial surface - edits on brainmask.mgz or brain.finalsurfs.mgz?
Ok. I'll give it a try. Thanks, Chris & Bruce!
On Wed, May 22, 2013 at 3:29 PM, Bruce Fischl fischl@nmr.mgh.harvard.eduwrote:
Hi Cherry
Chris is right. Putting control points in the WM will help the pial surface as well.
cheers Bruce
On Wed, 22 May 2013, Yizhou Ma wrote:
Hi Chris,
Thanks a lot. I agree that control points should actually only be put in white matter. I'm just not sure if I can expand the pial surface to a satisfactory extend if I only do edits in the white matter. It seems to me that the problem here is that the signal weakened in the lower part of the brain so that the gray matter doesn't have adequate intensity to be included in the pial surface (the values are around 30).
Thanks, Cherry
On Wed, May 22, 2013 at 3:14 PM, Chris Watson <Christopher.Watson@childrens.**harvard.eduChristopher.Watson@childrens.harvard.edu> wrote: You need to place the control points in the white matter, not around it.
On 05/22/2013 03:04 PM, Yizhou Ma wrote: Dear FS experts,I have a subject where large portions of temporal lobe is not included in the pial surface. A member in my lab has suggested edits on brain.finalsurfs.mgz. However, in the following page it is indicated that edits on brain.finalsurfs.mgz is only intended for cases regarding inclusion of cerebellum. Can anyone please let me know which volume I should be working on in this case?
http://ftp.nmr.mgh.harvard.**edu/fswiki/FsTutorial/**PialEditshttp://ftp.nmr.mgh.harvard.edu/fswiki/FsTutorial/PialEdits
Thanks, Cherry
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