commot.pl.plot_communication_impact

commot.pl.plot_communication_impact(df_impact, summary=None, show_gene_names=True, show_comm_names=True, top_ngene=- 1, top_ncomm=- 1, colormap='rocket', font_scale=1.4, filename=None, cluster_knn=5, cluster_res=0.5, cluster_colormap='Plotly', linewidth=0.0, vmin=0.0, vmax=1.0)

Plot communication impact obtained by running tl.communication_impact.

../_images/communication_impact.png
Parameters

  • df_impact (DataFrame) – The output from tl.communication_impact.

  • summary (Optional[str]) – If ‘receiver’, the received signals are plotted as rows. If ‘sender’, the sent signals are plotted as rows. If None, both are plotted.

  • show_gene_names (str) – Whether to plot gene names as x ticks.

  • show_comm_names (str) – Whether to plot communication names as y ticks.

  • top_ngene (int) – The number of most impacted genes to plot as columns. If -1, all genes in df_impact are plotted.

  • top_ncomm (int) – The number of communications with most impacts to plot as rows. If -1, all communications in df_impact are plotted.

  • colormap (str) – The colormap for the heatmap. Choose from available colormaps from seaborn.

  • font_scale (float) – Font size.

  • filename (Optional[str]) – Filename for saving the figure. Set the name to end with ‘.pdf’ or ‘png’ to specify format.

  • cluster_knn (str) – Number of nearest neighbors when clustering the rows and columns.

  • cluster_res (float) – The resolution paratemeter when running leiden clustering.

  • cluster_colormap (str) – The qualitative colormap for annotating gene cluster labels. Choose from ‘Plotly’, ‘Alphabet’, ‘Light24’, ‘Dark24’.