scHopfield.plotting.plot_perturbation_magnitude

scHopfield.plotting.plot_perturbation_magnitude(adata: AnnData, cluster_key: str = 'cell_type', basis: str = 'umap', figsize: Tuple[float, float] = (12, 5), cmap: str = 'viridis', vmax: float | None = None, order: List[str] | None = None, colors: Dict[str, str] | None = None) → Figure

Plot perturbation magnitude on embedding and as boxplot.

Parameters:

• adata (AnnData) – Annotated data object with simulation results

• cluster_key (str, optional (default: 'cell_type')) – Key in adata.obs for cluster labels

• basis (str, optional (default: 'umap')) – Embedding basis

• figsize (tuple, optional) – Figure size

• cmap (str, optional (default: 'viridis')) – Colormap for scatter plot

• vmax (float, optional) – Maximum value for colormap

• order (list, optional) – Order of clusters in boxplot. If None, sorts by median magnitude.

• colors (dict, optional) – Dictionary mapping cluster names to colors for boxplot

Returns:

Figure with plots

Return type:

plt.Figure