omicverse.bulk.geneset_plot

omicverse.bulk.geneset_plot(enrich_res, num=10, node_size=[5, 10, 15], cax_loc=[2, 0.55, 0.5, 0.02], cax_fontsize=12, fig_title='', fig_xlabel='Fractions of genes', figsize=(2, 4), cmap='YlGnBu', text_knock=5, text_maxsize=20, bbox_to_anchor_used=(-0.45, -13), node_diameter=10, custom_ticks=[5, 10], ax=None)[source]

Plot enrichment results as a bubble plot.

Parameters:

  • enrich_res (pandas.DataFrame) – Enrichment result table from geneset_enrichment/pyGSEA.enrichment.

  • num (int, optional) – Number of top enriched terms to display.

  • node_size (list[int], optional) – Bubble-size legend entries.

  • cax_loc (list[float], optional) – Colorbar axis rectangle [left,bottom,width,height].

  • cax_fontsize (int, optional) – Font size for colorbar and legend text.

  • fig_title (str, optional) – Plot title.

  • fig_xlabel (str, optional) – X-axis label.

  • figsize (tuple, optional) – Figure size.

  • cmap (str, optional) – Colormap for enrichment significance.

  • text_knock (int, optional) – Truncation parameter for long term names.

  • text_maxsize (int, optional) – Maximum text length/size control for term labels.

  • bbox_to_anchor_used (tuple, optional) – Legend anchor coordinates.

  • node_diameter (int, optional) – Bubble size scale factor.

  • custom_ticks (list[int], optional) – Custom colorbar ticks.

  • ax (matplotlib.axes.Axes|None, optional) – Existing axis to draw on.

Returns:

Axis containing enrichment bubble plot.

Return type:

matplotlib.axes.Axes