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.

7.10.18. nilearn.plotting.view_img_on_surf

nilearn.plotting.view_img_on_surf(stat_map_img, surf_mesh='fsaverage5', threshold=None, cmap=<matplotlib.colors.LinearSegmentedColormap object>, black_bg=False, vmax=None)

Insert a surface plot of a statistical map into an HTML page.

Parameters:

stat_map_img : Niimg-like object, 3D

surf_mesh : str or dict, optional.

if ‘fsaverage5’, use fsaverage5 mesh from nilearn.datasets if ‘fsaverage’, use fsaverage mesh from nilearn.datasets if a dictionary, it should have the same structure as those returned by nilearn.datasets.fetch_surf_fsaverage, i.e. keys should be ‘infl_left’, ‘pial_left’, ‘sulc_left’, ‘infl_right’, ‘pial_right’, and ‘sulc_right’, containing inflated and pial meshes, and sulcal depth values for left and right hemispheres.

threshold : str, number or None, optional (default=None)

If None, no thresholding. If it is a number only values 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 values of amplitude above the given percentile will be shown.

cmap : str or matplotlib colormap, optional

black_bg : bool, optional (default=False)

If True, image is plotted on a black background. Otherwise on a white background.

vmax : float or None, optional (default=None)

upper bound for the colorbar. if None, use the absolute max of the brain map.

Returns:

SurfaceView : plot of the stat map.

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.view_surf
plot from a surface map on a cortical mesh.

7.10.18.1. Examples using nilearn.plotting.view_img_on_surf