scdemon.plotting.plot_umap_grid

scdemon.plotting.plot_umap_grid(obj, graph_id, attr='leiden', plotname=None, ind=None, sel=None, width=2, s=0.5, imgdir='./')

Plot module average expression on the UMAP in a grid

Parameters:

  • obj (gene_graph | modules) – Object (gene_graph or modules) with modules to plot

  • graph_id (str) – Name of graph to work with

  • attr (str) – Name of modules in the graph

  • plotname – Name for output file, overriding default naming scheme

  • ind (np.array) – Which subset of cells to plot, (default None is plot all cells)

  • sel (list | np.array) – Which set of modules to plot

  • width (float) – Width (and height) of each subplot in the grid

  • s (float) – Size of points

  • imgdir (str) – Directory for images