stereo.plots.PlotPaga.paga_compare

PlotPaga.paga_compare(basis=None, adjacency='connectivities_tree', color=None, size=1, threshold=0.01, cmap='tab20', width=15, height=6, dot_size=30)[source]

abstract paga plot for the paga result and cell distribute around paga.

Parameters:

  • basis (Optional[str]) – the embedding of cells, default

  • adjacency (str) – keyword to use for paga or paga tree, available values include ‘connectivities’ and ‘connectivities_tree’. # noqa

  • color (Optional[str]) – the col in cells or a gene name to display in compare plot.

  • size (int) – cell spot size.

  • threshold (float) – prune edges lower than threshold.

  • cmap (str) – colormap to use, default with tab20.

  • width (int) – the figure width.

  • height (int) – the figure height.

  • dot_size (int) – The marker size in points**2 (typographic points are 1/72 in.). Default is 30.