eschr.pl.umap_heatmap

Contents

eschr.pl.umap_heatmap#

eschr.pl.umap_heatmap(adata, features=None, cat_palette='tab20', cont_palette='viridis_r', show=True, output_path=None, **kwargs)#

Make UMAP plot colored by hard clusters and confidence scores.

Parameters:

  • adata (anndata.AnnData) – AnnData object containing results from running ESCHR clustering.

  • features (list of str, default None) – Option to specify specific features to plot, if None then the method will calulate marker features for each cluster and plot those.

  • cat_cmap (str, default 'tab20') – Color map for categorical features.

  • cont_cmap (str, default 'viridis') – Color map for continuous features.

  • show (bool, default True) – Whether to show the plot.

  • output_path (str, default None) – Path specifying where to save the plot. If none, plot is not saved.

  • **kwargs – Args to pass along to matplotlib scatterplot.

Contents