can you tar and gzip the entire subject and upload it to our ftp site with coordinates of the problem areas? On Mon, 3 Jul 2017, Vincent Koppelmans wrote:
Hi Bruce,
Thank you for your reply.
The aseg seems to be okay:
https://www.dropbox.com/s/j1ac0ftxw8iiv34/Putamen.png?dl=0
Do you have any other suggestions?
Here is an extra image of the cortical ribbon. Maybe this helps:
https://www.dropbox.com/s/ycav96v91e4ncbg/Cortex.png?dl=0
Thanks!
- Vincent
On Mon, 03 Jul 2017, Bruce Fischl wrote:
Hi Vincent
the putamen error probably means that the aseg is wrong, and if so, you can correct the aseg and rerun autorecon2-wm and autorecon3 I believe.
For the medial ttemporal lobe issue is that really cortex? I can't really tell from the single coronal slice. I'll cc Jean Augustinack to see if she has an opinion.
cheers Bruce
On Fri, 30 Jun 2017, Vincent Koppelmans wrote:
Hi all,
I was wondering how to fix the following issues:
- The cortical ribbon extends into the gray matter of the putamen (see the
top row of the attached image).
- Cortical gray matter is missing in the medial temporal lobes (see the bot
tom row of the attached image).
I can’t find solutions for these particular issues under https://surfer.nmr.mgh.harvard.edu/fswiki/Edits https://surfer.nmr.mgh.harvard.edu/fswiki/Edits
How should I approach this? Suggestions are very much welcome.
Thank you!
- Vincent