ovrlpy.plot_region_of_interest

ovrlpy.plot_region_of_interest(x, y, coordinate_df, visualizer, integrity_map, signal_map, window_size=30, signal_plot_threshold=5.0, rasterized=True, scalebar=SCALEBAR_PARAMS)

Plot a comprehensive overview of a zoomed-in region of interest.

Parameters:

  • x (float) – x coordinate of the region of interest

  • y (float) – y coordinate of the region of interest

  • coordinate_df (DataFrame) – DataFrame of gene-annotated molecule coordinates

  • visualizer (Visualizer) – Visualizer object containing the fitted model

  • integrity_map (ndarray) – integrity map of the tissue

  • signal_map (ndarray) – Signal map of the tissue

  • window_size (int, optional) – Size of the window to display. Defaults to 30.

  • signal_plot_threshold (float, optional) – Threshold for the signal plot. Defaults to 5.

  • rasterized (bool, optional) – If True all plots will be rasterized. Defaults to True.

  • scalebar (dict[str, Any] | None) – If None no scalebar will be plotted. Otherwise a dictionary with additional kwargs for matplotlib_scalebar.scalebar.ScaleBar. By default ovrlpy.SCALEBAR_PARAMS