[Mne_analysis] BEM unaffected by edits to brainmask

[Eric Larson]

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Can you see if any of these ideas help?

https://mne.tools/dev/overview/faq.html#my-watershed-bem-meshes-look-incorrect

Eric


On Thu, Sep 3, 2020 at 6:58 PM Kadwani, Manorama <MKADWANI at mgh.harvard.edu>
wrote:

> Hi,
>
> While reconstructing cortical surface using Freesurfer, I encountered
> skull strip errors in the brainmask. I manually erased the dura mater, and
> then saved it as the main volume. Then re-ran the recon-all process. The
> pial and white matter surfaces came out correct, but the BEM surfaces were
> incorrect.
> The innermost BEM surfaces, inner skull and brain, followed the old
> incorrect brainmask boundary for some reason. Are the BEM surfaces based on
> brainmask boundary or the white and pial surfaces? How to make the BEM
> brain surface follow the Freesurfer output pial surface?
>
> Thanks!
> Manorama
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