nipype.interfaces.mne.base module¶
WatershedBEM¶
Bases: FSCommand
Wrapped executable:
mne watershed_bem
.Uses mne_watershed_bem to get information from dicom directories
Examples
>>> from nipype.interfaces.mne import WatershedBEM >>> bem = WatershedBEM() >>> bem.inputs.subject_id = 'subj1' >>> bem.inputs.subjects_dir = '.' >>> bem.cmdline 'mne watershed_bem --overwrite --subject subj1 --volume T1' >>> bem.run()
- subject_ida string
Subject ID (must have a complete Freesurfer directory). Maps to a command-line argument:
--subject %s
.- subjects_dira pathlike object or string representing an existing directory
Path to Freesurfer subjects directory. (Nipype default value:
<undefined>
)
- argsa string
Additional parameters to the command. Maps to a command-line argument:
%s
.- atlas_modea boolean
Use atlas mode for registration (default: no rigid alignment). Maps to a command-line argument:
--atlas
.- environa dictionary with keys which are a bytes or None or a value of class ‘str’ and with values which are a bytes or None or a value of class ‘str’
Environment variables. (Nipype default value:
{}
)- overwritea boolean
Overwrites the existing files. Maps to a command-line argument:
--overwrite
. (Nipype default value:True
)- volume‘T1’ or ‘aparc+aseg’ or ‘aseg’ or ‘brain’ or ‘orig’ or ‘brainmask’ or ‘ribbon’
The volume from the “mri” directory to use (defaults to T1). Maps to a command-line argument:
--volume %s
. (Nipype default value:T1
)
- brain_surfacea pathlike object or string representing an existing file
Brain surface (in Freesurfer format).
- cor_filesa list of items which are a pathlike object or string representing an existing file
“COR” format files.
- fif_filea pathlike object or string representing an existing file
“fif” format file for EEG processing in MNE.
- inner_skull_surfacea pathlike object or string representing an existing file
Inner skull surface (in Freesurfer format).
- mesh_filesa list of items which are a pathlike object or string representing an existing file
Paths to the output meshes (brain, inner skull, outer skull, outer skin).
- outer_skin_surfacea pathlike object or string representing an existing file
Outer skin surface (in Freesurfer format).
- outer_skull_surfacea pathlike object or string representing an existing file
Outer skull surface (in Freesurfer format).