Hello Bruce,

I am interested in this thread because I have encountered similar problems with my stroke patients. How do I solve it? Should I only edit the aseg and assign a label called "Lesion" in the FS LookUpTable? or Should I edit both the wm.mgz and aseg.mgz files? If the former, How do I achieve it? My goal is to make sure that WH and GM surfaces are traced properly. Any help will be appreciated. Thank you.

Best,

Paul

On Wed, Jun 21, 2017 at 12:45 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:

Hi Mariana

yes, control points would mess everything up. It looks like the rest of the surface was generated pretty accurately though - do you need to correct anything?

cheers
Bruce

On Wed, 21 Jun 2017, Budge, Mariana wrote:

Hi Freesurfer experts,

I am running FS on a patient with a chronic right occipital lobe infarct as
part of a larger study. The program does not recognize the area around the
lesion as brain matter, and I am wondering how best to treat this situation.
I am worried that adding Control Points will incorrectly label the region as
white matter. I am attaching some pictures of slices where this is apparent.
Thank you so much for your help!

Best,

Mariana

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.