plot super strucutre: super clust mc footprint, and selected genes

mcell_mc_plot_hierarchy(
  mc_id,
  graph_id,
  mc_order,
  sup_mcs,
  width,
  height,
  fig_fn = NULL,
  min_nmc = 2,
  shades = colorRampPalette(c("white", "pink", "red", "black", "brown", "orange")),
  plot_grid = T,
  show_mc_ids = F
)

Arguments

mc_id: id of metacell object
graph_id: id of graph for (Re-) constructing confusion matrix
mc_order: the mc ordering (e.g., hc$order using the output of mcell_mc_hclust_confu)
sup_mcs: the list you get from mcell_mc_hierarchy (for now)
width: width of figure in pixels
height: height of figure in pixels
fig_fn: figure name (NULL will create a figure named [mc_id]_supmc_confu in the figure directory)
min_nmc: minimal number of mc in supmc set, smaller gruops will not be plotted
shades: heatmap color palette
plot_grid: plot vertical grid in the heatmap
show_mc_ids: plot mc ids below the heatmap