dotPlot.pathway: To present a dot plot for top ligand-receptor pairs involved...

In yingyonghui/CommPath:

To present a dot plot for top ligand-receptor pairs involved in the specific pathways in the selected clusters

Description

To present a dot plot for top ligand-receptor pairs involved in the specific pathways in the selected clusters

Usage

dotPlot.pathway(
  object,
  acti.path.filtered.dat,
  pathway,
  ligand.ident = NULL,
  receptor.ident = NULL,
  ident.levels = NULL,
  top.n.inter = 10,
  return.data = FALSE
)

Arguments

object	CommPath object
acti.path.filtered.dat	Data frame of differential activation test result of filtered from diffAllPath
pathway	To present a dot plot for ligand-receptor pairs involved in which pathway
ligand.ident	Vector containing the ligand ident
receptor.ident	Vector containing the receptor ident
ident.levels	Vector of levels of the identities
top.n.inter	Show the dotplot for the top n LR pairs with the largest product of Log2FC
return.data	Logical value indicating whether to return the data for the plot or not

Value

Dotplot showing the ligand-receptor interaction involved in the specific pathways in the selected clusters

yingyonghui/CommPath documentation built on June 15, 2025, 6:29 a.m.