Thank you Bruce,
So if I want to edit both cortex and subcortical structures, should the steps be the following:
1. edit wm.mgz 2. recon-all -autorecon2-wm -subjid 3. edit subcortical structures 4. recon-all -autorecon2 -autorecon3 -subjid ?
Best wishes, Tanja.
On Thu, May 5, 2011 at 2:40 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Tanja
yes, there is really no visible extreme capsule white matter, I guess because it is so thin. If you are trying to fix the surfaces you will want to edit the wm.mgz though, not the aseg.mgz.
cheers Bruce
On Thu, 5 May 2011, Tetiana Dadakova wrote:
Dear Bruce,
For some of my subjects the segmentation of putamen "sticks" to the cortex (please look at attached image "before.jpg"). Therefore, I do some manual corrections that affect the cortex (please look at attached image "after.jpg").
How should I proceed after this kind of manual correction?
Thank you, Tanja.
On Wed, Mar 30, 2011 at 3:31 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Tanja unless the editing would change the cortex, you don't need to worry about it
Bruce On Wed, 30 Mar 2011, Tetiana Dadakova wrote:
Dear FreeSurfer list,
I am making some manual correction to subcortical structures using Edit Segmentation Tool. And my question is: how should I proceed after saving aseg.mgz? Should I re-run autorecon2 with some options?
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