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Dear All,
what is the remedy when there is the following error for bem calculation (with mne watershed_bem)?
Surface inner skull is not completely inside surface outer skull
Best,
Mina
P.S. I plot the sufaces using mne.viz.plot_bem and see that the inner skull is not inside in outer skull surface.
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There are many options for computing the watershed bem, MNE only exposes
some of them. You can try to fix it using Freesurfer commands. Check the
archive for ideas here, such as:
https://mail.nmr.mgh.harvard.edu/pipermail//mne_analysis/2019-April/005805.html
Eric
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Depending on how your segmentation looks, the simplest solution might be to
run mri_expand in Freesurfer on the inner skull surface with a small
negative value.
Be sure to check the quality of the BEM afterwards.
Mainak