mne_nirs.visualisation.plot_nirs_source_detector#

mne_nirs.visualisation.plot_nirs_source_detector(data, info=None, radius=0.001, trans=None, subject=None, subjects_dir=None, surfaces='head', coord_frame='head', meg=None, eeg='original', fwd=None, dig=False, ecog=True, src=None, mri_fiducials=False, bem=None, seeg=True, fnirs=False, show_axes=False, fig=None, cmap=None, interaction='trackball', verbose=None)[source]#

3D visualisation of fNIRS response magnitude.

This function plots the response amplitude for each channel. Each channel is represented by a line between the source and detector, the color of the line reflects the response magnitude.

Parameters:

dataarray

Array of values to be plotted between source and detectors. One value should be specified per channel in the same order as info.chs.

infodict | None

The measurement info. If None (default), no sensor information will be shown.

radiusnumbers

Tube radius for connecting links.

transpath-like | dict | instance of Transform | "fsaverage" | None

If str, the path to the head<->MRI transform *-trans.fif file produced during coregistration. Can also be 'fsaverage' to use the built-in fsaverage transformation. If trans is None, an identity matrix is assumed.

subjectstr | None

The subject name corresponding to FreeSurfer environment variable SUBJECT. Can be omitted if src is provided.

subjects_dirpath-like | None

The path to the directory containing the FreeSurfer subjects reconstructions. If None, defaults to the SUBJECTS_DIR environment variable.

surfacesstr | list

Surfaces to plot. Supported values:

scalp: one of ‘head’, ‘outer_skin’ (alias for ‘head’), ‘head-dense’, or ‘seghead’ (alias for ‘head-dense’)
skull: ‘outer_skull’, ‘inner_skull’, ‘brain’ (alias for ‘inner_skull’)
brain: one of ‘pial’, ‘white’, ‘inflated’, or ‘brain’ (alias for ‘pial’).

Defaults to ‘head’.

Note

For single layer BEMs it is recommended to use ‘brain’.

coord_framestr

Coordinate frame to use, ‘head’, ‘meg’, or ‘mri’.

megstr | list | bool | None

Can be “helmet”, “sensors” or “ref” to show the MEG helmet, sensors or reference sensors respectively, or a combination like ('helmet', 'sensors') (same as None, default). True translates to ('helmet', 'sensors', 'ref').

eegbool | str | list

String options are:

“original” (default; equivalent to True)
Shows EEG sensors using their digitized locations (after transformation to the chosen coord_frame)
“projected”
The EEG locations projected onto the scalp, as is done in forward modeling

Can also be a list of these options, or an empty list ([], equivalent of False).

fwdinstance of Forward

The forward solution. If present, the orientations of the dipoles present in the forward solution are displayed.

digbool | ‘fiducials’

If True, plot the digitization points; ‘fiducials’ to plot fiducial points only.

ecogbool

If True (default), show ECoG sensors.

srcinstance of SourceSpaces | None

If not None, also plot the source space points.

mri_fiducialsbool | str

Plot MRI fiducials (default False). If True, look for a file with the canonical name (bem/{subject}-fiducials.fif). If str it should provide the full path to the fiducials file.

bemlist of dict | instance of ConductorModel | None

Can be either the BEM surfaces (list of dict), a BEM solution or a sphere model. If None, we first try loading ‘$SUBJECTS_DIR/$SUBJECT/bem/$SUBJECT-$SOURCE.fif’, and then look for ‘$SUBJECT*$SOURCE.fif’ in the same directory. For ‘outer_skin’, the subjects bem and bem/flash folders are searched. Defaults to None.

seegbool

If True (default), show sEEG electrodes.

fnirsbool

If True (default), show fNIRS electrodes.

show_axesbool

If True (default False), coordinate frame axis indicators will be shown:

head in pink.
MRI in gray (if trans is not None).
MEG in blue (if MEG sensors are present).

Added in version 0.16.

figmayavi.mlab.Figure | None

Mayavi Scene in which to plot the alignment. If None, creates a new 600x600 pixel figure with black background.

Added in version 0.16.

cmapstr

Colormap to be used.

interactionstr

Can be “trackball” (default) or “terrain”, i.e. a turntable-style camera.

Added in version 0.16.

verbosebool | 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.

Returns: