Note

This page is a reference documentation. It only explains the function signature, and not how to use it. Please refer to the user guide for the big picture.

7.10.20. nilearn.plotting.view_connectome

nilearn.plotting.view_connectome(adjacency_matrix, node_coords, edge_threshold=None, edge_cmap=<matplotlib.colors.LinearSegmentedColormap object at 0x7f676b9698d0>, symmetric_cmap=True, linewidth=6.0, node_size=3.0, colorbar=True, colorbar_height=0.5, colorbar_fontsize=25, title=None, title_fontsize=25)

Insert a 3d plot of a connectome into an HTML page.

Parameters
adjacency_matrixndarray, shape=(n_nodes, n_nodes)

the weights of the edges.

node_coordsndarray, shape=(n_nodes, 3)

the coordinates of the nodes in MNI space.

edge_thresholdstr, number or None, optional (default=None)

If None, no thresholding. If it is a number only connections of amplitude greater than threshold will be shown. If it is a string it must finish with a percent sign, e.g. “25.3%”, and only connections of amplitude above the given percentile will be shown.

edge_cmapstr or matplotlib colormap, optional
symmetric_cmapbool, optional (default=True)

Make colormap symmetric (ranging from -vmax to vmax).

linewidthfloat, optional (default=6.)

Width of the lines that show connections.

node_sizefloat, optional (default=3.)

Size of the markers showing the seeds in pixels.

colorbarbool, optional (default=True)

add a colorbar

colorbar_heightfloat, optional (default=.5)

height of the colorbar, relative to the figure height

colorbar_fontsizeint, optional (default=25)

fontsize of the colorbar tick labels

titlestr, optional (default=None)

title for the plot

title_fontsizeint, optional (default=25)

fontsize of the title

Returns
ConnectomeViewplot of the connectome.

It can be saved as an html page or rendered (transparently) by the Jupyter notebook. Useful methods are :

  • ‘resize’ to resize the plot displayed in a Jupyter notebook

  • ‘save_as_html’ to save the plot to a file

  • ‘open_in_browser’ to save the plot and open it in a web browser.

See also

nilearn.plotting.plot_connectome

projected views of a connectome in a glass brain.

nilearn.plotting.view_markers

interactive plot of colored markers

nilearn.plotting.view_surf, nilearn.plotting.view_img_on_surf

interactive view of statistical maps or surface atlases on the cortical surface.