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 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
> combine with the aseg.presurf.mgz/stamp it onto the aseg.presurf.mgz
> and then run recon-all -autorecon2-noaseg -autorecon3.
>
> I have done the first part:
> 1) mri_convert -rl /subject/mri/brainmask.mgz -rt nearest stroke.nii
> stroke.mgz (use freeview to check the accuracy)
>
> I want to combine the stroke.mgz with the aseg.presurf.mgz in order to
> create a new ROI. what command should I use to accomplish this? Thanks
>
> Best,
>
> Paul
>
>
>
>
>
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--
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MGH-NMR Center
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