Re: [Freesurfer] combining a stroke lesion label with aseg.presurf.mgz

sorry, should be mergeseg --src aseg.auto.mgz --merge stroke.mgz --o aseg.presurf.mgz --segid 77 when you re-run recon-all, it will create the manedit file On 09/07/2017 12:49 PM, miracle ozzoude wrote: > Thanks doug. If I run the recon-all -autorecon2-noaseg -autorecon3. > Will it

Re: [Freesurfer] combining a stroke lesion label with aseg.presurf.mgz

Thanks doug. If I run the recon-all -autorecon2-noaseg -autorecon3. Will it incorporate the stroke? Also, does it matter if it's a cortical stroke and i am using v6.0 and i don't see aseg.manedit.mgz. Best, Paul On Thu, Sep 7, 2017 at 12:38 PM, Douglas N Greve wrote:

Re: [Freesurfer] combining a stroke lesion label with aseg.presurf.mgz

try something like mergeseg --src aseg.presurf.mgz --merge stroke.mgz --o aseg.manedit.mgz --segid 77 This will model the strokes as WM hypointensities On 09/07/2017 11:54 AM, miracle ozzoude wrote: > Hello FreeSurfer expert, > > I have a binarized stroke masks of 200 stroke patients that

[Freesurfer] combining a stroke lesion label with aseg.presurf.mgz

Hello FreeSurfer expert, I have a binarized stroke masks of 200 stroke patients that were hand traced. Since, we have a lot of patients, it will take a lot of time to edit the aseg.presurf.mgz. The stroke masks were drawn in the native space and I want to bring them into the freesurfer space, and