omicverse.single.plot_metacells

omicverse.single.plot_metacells(ax, metacells_ad, use_rep='X_umap', color='#1f77b4', size=15, edgecolors='b', linewidths=0.6, alpha=1, **kwargs)[source]

Plot metacell centroids on a given embedding axis.

Parameters:

  • ax (matplotlib.axes.Axes) – Target axis used for plotting.

  • metacells_ad (anndata.AnnData) – Metacell-level AnnData containing SEACell assignments.

  • use_rep (str, default='X_umap') – Embedding key in metacells_ad.obsm for coordinates.

  • color (str, default='#1f77b4') – Marker face color.

  • size (int, default=15) – Marker size.

  • edgecolors (str, default='b') – Marker edge color.

  • linewidths (float, default=0.6) – Marker edge width.

  • alpha (float, default=1) – Marker transparency.

  • **kwargs – Additional keyword arguments passed to Axes.scatter.

Returns:

Axis with metacell points overlaid.

Return type:

matplotlib.axes.Axes