[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve
Sent: Tuesday, August 21, 2012 3:52 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Edits to aparc+aseg.mgz
Run it with -autorecon3
doug
On 08/21/2012 10:44 AM, Sarosh, Cyrus wrote:
Doug,
Thanks for the update
?
Thanks,
Cyrus
-Original Message-
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve
Sent: Tuesday, August 21, 2012 3:52 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Edits to aparc+aseg.mgz
Run
...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve
Sent: Monday, August 20, 2012 2:18 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Edits to aparc+aseg.mgz
Hi Cyrus, my apologies, I told you to edit the wrong file. You should edit
, August 14, 2012 1:43 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Edits to aparc+aseg.mgz
For GM volume and thickness, you will certainly want to fix it. Given how
big the PET voxels are, it might not be such a big deal for that. To fix it,
you would edit the dura from
] On Behalf Of Douglas N Greve
Sent: Tuesday, August 14, 2012 1:43 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Edits to aparc+aseg.mgz
For GM volume and thickness, you will certainly want to fix it. Given how big
the PET voxels are, it might not be such a big deal for that. To fix
, 2012 1:43 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Edits to aparc+aseg.mgz
For GM volume and thickness, you will certainly want to fix it. Given how big
the PET voxels are, it might not be such a big deal for that. To fix it, you
would edit the dura from
it appear.
Cyrus
-Original Message-
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve
Sent: Monday, August 13, 2012 4:13 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Edits to aparc+aseg.mgz
Hi Cyrus
-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve
Sent: Monday, August 13, 2012 4:13 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Edits to aparc+aseg.mgz
Hi Cyrus, this may or may not be a problem. The cortical label
@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Edits to aparc+aseg.mgz
Depending upon how bad it is and what you are going to do with it, it may be a
good idea to edit the brain.finalsurfs.mgz to remove the dura, then run
recon-all -autorecon-pial ...
doug
On 08/14/2012 11:18 AM, Sarosh, Cyrus wrote:
Doug
Greve
Sent: Tuesday, August 14, 2012 11:28 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Edits to aparc+aseg.mgz
Depending upon how bad it is and what you are going to do with it, it may be
a good idea to edit the brain.finalsurfs.mgz to remove the dura, then run
recon-all
Hello FreeSurfer Users,
I looked for a possible solution to my problem in the Mail Archive and found
this article referring to almost the exact same problem I am having:
http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg06314.html.
Basically, pieces of the subarachnoid space/pia
Hi Cyrus, this may or may not be a problem. The cortical label in
aseg.mgz is not used for this reason. Usually, the surface-based method
will exclude the dura in these situations. Are the surfaces accurate or
are they including dura as well? BTW, you should not be editing the
aparc+aseg.mgz.
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