RegulonScores: RegulonScores

In smorabit/hdWGCNA: hdWGCNA

RegulonScores

Description

Calculate expression scores for TF Regulons

Usage

RegulonScores(
  seurat_obj,
  target_type = "positive",
  cor_thresh = 0.05,
  exclude_grey_genes = TRUE,
  wgcna_name = NULL,
  ...
)

Arguments

seurat_obj	A Seurat object
target_type	Which types of TF target genes to compute scores for? "positive", "negative", or "both"
cor_thresh	threshold for TF-gene correlation for genes to be included in the regulon score
exclude_grey_genes	option to exclude genes that are in the grey module from the regulon scores
wgcna_name	name of the WGCNA experiment

Details

RegulonScores calculates expression signatures for each TF regulon using the UCell algorithm This function can calculate separate scores for TF regulons for target genes that are positively or negatively correlated with the TF, representing putative acivated or repressed genes. These scores conveniently summarize the expression levels of the entire TF regulon, similar to module eigengenes for the co-expression network analyssis.

Value

seurat_obj with the TF Regulon Scores added

smorabit/hdWGCNA documentation built on Oct. 23, 2024, 11:19 p.m.