Visualising an sf object (for internal use only at the moment)

Usage

plotContourRegion(
  spe,
  coi,
  id = "cell_type",
  overlay = c("density", "cell"),
  sub.level
)

spe: A SpatialExperiment object.
coi: A character vector of length 1 of the cell type of interest.
id: A character. The name of the column of colData(spe) containing the cell type identifiers. Set to cell_type by default.
overlay: Character vector. Either plot overlay on density or cells.
sub.level: Numeric vector of length 1 or 2, identifies which density level to plot. When length is 1, plot the density region above this level. When length is 2, plot the density region between the two levels.

A ggplot object.