AssignTFRegulons: AssignTFRegulons
In smorabit/hdWGCNA: hdWGCNA

AssignTFRegulons

R Documentation

AssignTFRegulons

Description

Define the set of likely target genes (Regulons) for each transcrition factor

Usage

AssignTFRegulons(
  seurat_obj,
  strategy = "A",
  reg_thresh = 0.01,
  n_tfs = 10,
  n_genes = 50,
  wgcna_name = NULL
)

Arguments

`seurat_obj`	A Seurat object
`strategy`	method for defining regulons, "A", "B", or "C". See Details for more info.
`reg_thresh`	threshold for regulatory score in strategies A, B, and C
`n_tfs`	for strategy A, the number of top TFs to keep for each gene
`n_genes`	for strategy B, the number of top target genes to keep for each TF
`wgcna_name`	name of the WGCNA experiment

Details

AssignTFRegulons uses the TF network information from ConstructTFNetwork to define sets of confident TF-gene pairs. A "regulon" is the set of target genes for a given TF, and this function provides three different strategies to define TF regulons. Strategy "A" selects the top TFs for each gene, strategy "B" selects the top genes for each TF, and strategy "C" retains all TF-gene pairs above a certain regulatory score (reg_thresh).