Access linkages

A function to pull linkages from a domino object

Usage

dom_linkages(
  dom,
  link_type = c("complexes", "receptor-ligand", "tf-target", "tf-receptor", "receptor",
    "incoming-ligand"),
  by_cluster = FALSE
)

Arguments

dom

A domino object that has been created with create_domino()

link_type

One value (out of "complexes", "receptor-ligand", "tf-target", "tf-receptor", "receptor", "incoming-ligand") used to select the desired type of linkage

by_cluster

A boolean to indicate whether the linkages should be returned overall or by cluster

Value

A list containing linkages between some combination of receptors, ligands, transcription factors, and clusters

Examples

complexes <- dom_linkages(dominoSignal:::pbmc_dom_built_tiny, "complexes")
tf_rec_by_cluster <- dom_linkages(dominoSignal:::pbmc_dom_built_tiny, "tf-receptor", TRUE)