SPACEL.Scube.plot.plot_stacked_slices

SPACEL.Scube.plot.plot_stacked_slices(ad_list, spatial_key, cluster_key, legend=True, frameon=False, colors=None, i=1, j=1, s=1)

Plot all slices stacked

Plot all slices stacked in one figure with a given number of subplots rows and columns. Spots/cells colored by spatial domain.

Parameters:

  • ad_list – A list of AnnData objects containing all slices.

  • spatial_key – A string representing one key of obsm in AnnData object of all slices, containing the coordinates used to plot.

  • cluster_key – A string representing one column of obs in AnnData object of all slices, containing the spatial domain information used to plot.

  • legend – Whether to display the legend.

  • frameon – Whether to hide the coordinate axes.

  • colors – A list of colors for each spatial domain to plot. If None, it will default to tab10 or tab20 accoording to the number of spatial domains.

  • i – Number of rows of the subplots.

  • j – Number of columns of the subplots. If i=j=1, it will be a single figure.

  • s – Size of points.

Returns:

None