Useful plotting function to plot heatmap of module expression across time with pre-split matrix

heatmap_by_treatment_group(
  expList,
  meta_data,
  pseudotime_column = "pseudotime",
  toScale = T,
  limits = c(0, 5),
  smooth = TRUE,
  order_by = "WAG",
  thresh_on = 0.02,
  fontSize = 8,
  anno_colors = NA
)

Arguments

expList: list of expression matrices
meta_data: sample table
pseudotime_column: column in sample table containing pseudotime annotation
toScale: whether or not to scale expression
limits: limits on expression
smooth: whether or not to smooth expression across pseudotime for cleaner plotting
order_by: name in expList that is used to order rows in the heatmap
thresh_on: threshold expression is considered on, used in ordering the rows
fontSize: heatmap font size
anno_colors: annotation colors

Value

pheatmap