mne.bem.make_scalp_surfaces#
- mne.bem.make_scalp_surfaces(subject, subjects_dir=None, force=True, overwrite=False, no_decimate=False, *, threshold=20, mri='T1.mgz', verbose=None)[source]#
Create surfaces of the scalp and neck.
The scalp surfaces are required for using the MNE coregistration GUI, and allow for a visualization of the alignment between anatomy and channel locations.
- Parameters:
- subject
str The FreeSurfer subject name.
- subjects_dirpath-like |
None The path to the directory containing the FreeSurfer subjects reconstructions. If
None, defaults to theSUBJECTS_DIRenvironment variable.- force
bool Force creation of the surface even if it has some topological defects. Defaults to
True. See Fixing BEM and head surfaces for ideas on how to fix problematic meshes.- overwrite
bool If True (default False), overwrite the destination file if it exists.
- no_decimate
bool Disable the “medium” and “sparse” decimations. In this case, only a “dense” surface will be generated. Defaults to
False, i.e., create surfaces for all three types of decimations.- threshold
int The threshold to use with the MRI in the call to
mkheadsurf. The default is20.New in version 1.1.
- mri
str The MRI to use. Should exist in
$SUBJECTS_DIR/$SUBJECT/mri.New in version 1.1.
- verbose
bool|str|int|None Control verbosity of the logging output. If
None, use the default verbosity level. See the logging documentation andmne.verbose()for details. Should only be passed as a keyword argument.
- subject