celldancer.cdplt.plot_kinetic_para

celldancer.cdplt.plot_kinetic_para(ax, kinetic_para, cellDancer_df, color_map=None, title=None, legend=False)

Plot the UMAP calculated by the kinetic parameter(s).

Parameters

• ax (ax) – ax of plt.subplots()

• kinetic_para (str) – The parameter used to generate the embedding space based on UMAP, could be selected from {‘alpha’, ‘beta’, ‘gamma’, ‘alpha_beta_gamma’}.

• cellDancer_df (pandas.DataFrame) – Dataframe of velocity estimation results. Columns=[‘cellIndex’, ‘gene_name’, ‘splice’, ‘unsplice’, ‘splice_predict’, ‘unsplice_predict’, ‘alpha’, ‘beta’, ‘gamma’, ‘loss’, ‘cellID’, ‘clusters’, ‘embedding1’, ‘embedding2’]

• color_map (dict (optional, default: None)) – The color map dictionary of each cell type.

• legend (bool (optional, default: False)) – True if the color map of cell legend is to be plotted.