mne_connectivity.viz.plot_connectivity_circle

mne_connectivity.viz.plot_connectivity_circle(con, node_names, indices=None, n_lines=None, node_angles=None, node_width=None, node_height=1.0, node_colors=None, facecolor='black', textcolor='white', node_edgecolor='black', linewidth=1.5, colormap='hot', vmin=None, vmax=None, colorbar=True, title=None, colorbar_size=0.2, colorbar_pos=(-0.3, 0.1), fontsize_title=12, fontsize_names=8, fontsize_colorbar=8, padding=6.0, ax=None, fig=None, subplot=None, interactive=True, node_linewidth=2.0, show=True)

Visualize connectivity as a circular graph.

Parameters:

conarray | Connectivity

Connectivity scores. Can be a square matrix, or a 1D array. If a 1D array is provided, “indices” has to be used to define the connection indices.

node_nameslist of str

Node names. The order corresponds to the order in con.

indicestuple of array | None

Two arrays with indices of connections for which the connections strengths are defined in con. Only needed if con is a 1D array.

n_linesint | None

If not None, only the n_lines strongest connections (strength=abs(con)) are drawn.

node_anglesarray, shape (n_node_names,) | None

Array with node positions in degrees. If None, the nodes are equally spaced on the circle. See mne.viz.circular_layout.

node_widthfloat | None

Width of each node in degrees. If None, the minimum angle between any two nodes is used as the width.

node_heightfloat

The relative height of the colored bar labeling each node. Default 1.0 is the standard height.

node_colorslist of tuple | list of str

List with the color to use for each node. If fewer colors than nodes are provided, the colors will be repeated. Any color supported by matplotlib can be used, e.g., RGBA tuples, named colors.

facecolorstr

Color to use for background. See matplotlib.colors.

textcolorstr

Color to use for text. See matplotlib.colors.

node_edgecolorstr

Color to use for lines around nodes. See matplotlib.colors.

linewidthfloat

Line width to use for connections.

colormapstr | instance of matplotlib.colors.LinearSegmentedColormap

Colormap to use for coloring the connections.

vminfloat | None

Minimum value for colormap. If None, it is determined automatically.

vmaxfloat | None

Maximum value for colormap. If None, it is determined automatically.

colorbarbool

Display a colorbar or not.

titlestr

The figure title.

colorbar_sizefloat

Size of the colorbar.

colorbar_postuple, shape (2,)

Position of the colorbar.

fontsize_titleint

Font size to use for title.

fontsize_namesint

Font size to use for node names.

fontsize_colorbarint

Font size to use for colorbar.

paddingfloat

Space to add around figure to accommodate long labels.

axinstance of matplotlib PolarAxes | None

The axes to use to plot the connectivity circle.

figNone | instance of matplotlib.figure.Figure

The figure to use. If None, a new figure with the specified background color will be created.

Deprecated: will be removed in version 0.5.

subplotint | tuple, shape (3,)

Location of the subplot when creating figures with multiple plots. E.g. 121 or (1, 2, 1) for 1 row, 2 columns, plot 1. See matplotlib.pyplot.subplot.

Deprecated: will be removed in version 0.5.

interactivebool

When enabled, left-click on a node to show only connections to that node. Right-click shows all connections.

node_linewidthfloat

Line with for nodes.

showbool

Show figure if True.

Returns:

figinstance of matplotlib.figure.Figure

The figure handle.

axinstance of matplotlib.projections.polar.PolarAxes

The subplot handle.

Notes

This code is based on a circle graph example by Nicolas P. Rougier

By default, matplotlib.pyplot.savefig() does not take facecolor into account when saving, even if set when a figure is generated. This can be addressed via, e.g.:

>>> fig.savefig(fname_fig, facecolor='black') 

If facecolor is not set via matplotlib.pyplot.savefig(), the figure labels, title, and legend may be cut off in the output figure.

Examples using mne_connectivity.viz.plot_connectivity_circle

Compute mixed source space connectivity and visualize it using a circular graph

Compute mixed source space connectivity and visualize it using a circular graph

Compute source space connectivity and visualize it using a circular graph

Compute source space connectivity and visualize it using a circular graph