sc_utils.plot_composition

sc_utils.plot_composition(adata: anndata._core.anndata.AnnData, group_by: str, color: str, relative: bool = False, palette: Optional[Collection] = None, plot_numbers: bool = False) → matplotlib.axes._axes.Axes[source]

Plot composition of clusters or other metadata

Groups cells by one metadata field and plots stacked barplot colored by another metadata field. Common use case is to see which samples contribute to which clusters. Plots horizontally.

Parameters

  • adata – Annotated data matrix

  • group_by – Name of the field to group by on y axis

  • color – Name of the field to color by

  • relative – Plot percentage for each cluster if True or absolute counts if False

  • palette – Optional, pass your own palette

  • plot_numbers – If True, plot number of cells next to the bars

Returns

Matplotlib axes with the plot.