nipy.labs.viz_tools.maps_3d.plot_map_3d¶
- nipy.labs.viz_tools.maps_3d.plot_map_3d(map, affine, cut_coords=None, anat=None, anat_affine=None, threshold=None, offscreen=False, vmin=None, vmax=None, cmap=None, view=(38.5, 70.5, 300, (-2.7, -12, 9.1)))¶
Plot a 3D volume rendering view of the activation, with an outline of the brain.
- Parameters:
- map3D ndarray
The activation map, as a 3D image.
- affine4x4 ndarray
The affine matrix going from image voxel space to MNI space.
- cut_coords: 3-tuple of floats, optional
The MNI coordinates of a 3D cursor to indicate a feature or a cut, in MNI coordinates and order.
- anat3D ndarray, optional
The anatomical image to be used as a background. If None, the MNI152 T1 1mm template is used. If False, no anatomical image is used.
- anat_affine4x4 ndarray, optional
The affine matrix going from the anatomical image voxel space to MNI space. This parameter is not used when the default anatomical is used, but it is compulsory when using an explicit anatomical image.
- thresholdfloat, optional
The lower threshold of the positive activation. This parameter is used to threshold the activation map.
- offscreen: boolean, optional
If True, Mayavi attempts to plot offscreen. Will work only with VTK >= 5.2.
- vminfloat, optional
The minimal value, for the colormap
- vmaxfloat, optional
The maximum value, for the colormap
- cmapa callable, or a pyplot colormap
A callable returning a (n, 4) array for n values between 0 and 1 for the colors. This can be for instance a pyplot colormap.
Notes
If you are using a VTK version below 5.2, there is no way to avoid opening a window during the rendering under Linux. This is necessary to use the graphics card for the rendering. You must maintain this window on top of others and on the screen.