visualize ❭ cell_morphology_visualizer ❭ CellMorphologyVisualizer ❭ plot

CellMorphologyVisualizer.plot

visualize.cell_morphology_visualizer.CellMorphologyVisualizer.plot(color='grey', show_legend=True, show_synapses=False, time_point=None, save='', highlight_section=None, highlight_x=None)

Plot the cell morphology in 3D.

Cam be used to create a static plot of the cell morphology, which may be color-coded with voltage, ion dynamics, or synapse activations.

Parameters:

  • color (str | [[float]]) – If you want some other color overlayed on the cell morphology. Options: “voltage”, “vm”, “synapses”, “synapse”, or a color string, or a nested list of colors for each section

  • legend (bool) – whether the voltage legend should appear in the plot

  • show_synapses (bool) – whether the synapse activations should be shown

  • time_point (int|float) – time point from which we want to gather the voltage/synapses. Defaults to 0

  • save (bool) – path where the plot will be saved. If it’s empty it will not be saved (Default)

  • highlight_section (int) – section number of the section that should be highlighted

  • highlight_x (float) – x coordinate of the section that should be highlighted

Returns:

matplotlib figure containing the plot.

Return type:

fig