Create BEM surfaces using the FreeSurfer watershed algorithm.
str
Subject name.
None
The path to the directory containing the FreeSurfer subjects
reconstructions. If None
, defaults to the SUBJECTS_DIR
environment
variable.
If True (default False), overwrite the destination file if it exists.
str
Defaults to T1.
Specify the –atlas option for mri_watershed.
Specify the –brain_atlas option for mri_watershed.
int
Change the preflood height.
Show surfaces to visually inspect all three BEM surfaces (recommended).
New in version 0.12.
If True (default), use copies instead of symlinks for surfaces (if they do not already exist).
New in version 0.18.
Changed in version 1.1: Use copies instead of symlinks.
None
If True, pass the -T1
flag.
By default (None), this takes the same value as gcaatlas
.
New in version 0.19.
str
The filename for the brainmask output file relative to the
$SUBJECTS_DIR/$SUBJECT/bem/watershed/
directory.
Can be for example "../../mri/brainmask.mgz"
to overwrite
the brainmask obtained via recon-all -autorecon1
.
New in version 0.19.
str
| int
| None
Control verbosity of the logging output. If None
, use the default
verbosity level. See the logging documentation and
mne.verbose()
for details. Should only be passed as a keyword
argument.
See also
Notes
If your BEM meshes do not look correct when viewed in
mne.viz.plot_alignment()
or mne.viz.plot_bem()
, consider
potential solutions from the FAQ.
New in version 0.10.
mne.bem.make_watershed_bem
#Working with CTF data: the Brainstorm auditory dataset
Head model and forward computation