Interaction Scatter Plot — PlotScatter • scMatchmaker

Generate a scatter plot of interactions.

PlotScatter(
  object,
  ident1,
  ident2,
  ligands,
  receptors,
  use_raw = TRUE,
  add.lines = FALSE,
  add.text = TRUE,
  background.col = "grey",
  ligand.col = "red",
  receptor.col = "blue",
  ligand.pch = 16,
  receptor.pch = 16,
  point.cex = 1,
  label.offset = 1,
  ligand.pos = 2,
  receptor.pos = 4,
  legend.pos = "topright",
  ...
)

Arguments

object: Matchmaker object.
ident1: Cell identity 1 to plot.
ident2: Cell identity 2 to plot.
ligands: Ligand name.
receptors: Receptor name.
use_raw: Logic, use raw data or ligand-receptor data. Default is TRUE.
add.lines: Logic, draw lines between ligand-receptor pairs. Default is FALSE.
add.text: Logic, add text for ligands and receptors. Default is TRUE.
background.col: Background points color. Default is gray.
ligand.col: Ligand points color. Default is red.
receptor.col: Receptor points color. Default is blue.
ligand.pch: Point shape for ligands. Default is 16 (solid circle).
receptor.pch: Point shape for receptor. Default is 16 (solid circle).
point.cex: Point size. Default is 1.
label.offset: Text label offset. Default is 1.
ligand.pos: Ligand label position. Default is 2 (left). See text.
receptor.pos: Receptor label position. Default is 4 (right). See text.
legend.pos: Legend position. Default is 'topright'.
...: Additioanl arguments passed to plot.

Value

Return a scatter plot of interactions.

Examples

if (FALSE) {
 PlotScatter(object, ident1 = "Tumor", ident2 = "Immune", ligands = "CD274", receptors = "PDCD1")
}