extractTFTG: extracts transcription factor (TF) and target gene (TG)...

In TFactSR: Enrichment Approach to Predict Which Transcription Factors are Regulated

extracts transcription factor (TF) and target gene (TG) information

Description

This function extracts information about transcription factor (TF) and target gene (TG) with TFactS Catalogue (v2).

Usage

extractTFTG(
  DEGs,
  catalog,
  TF.col = "TF..OFFICIAL_TF_CODING_GENE_NAME.",
  TG.col = "Target.gene..OFFICIAL_GENE_NAME."
)

Arguments

DEGs	a character vector of DEGs (differentially expressed genes)
catalog	a data frame of TFactS catalog (ver. 2)
TF.col	the name of the column that contains the TF names
TG.col	the name of the column that contains the TG names

Value

list

Author(s)

Atsushi Fukushima

Examples

data(DEGs)
data(catalog)

res <- extractTFTG(DEGs, catalog)
head(res$TFs)

TFactSR documentation built on Aug. 31, 2023, 5:09 p.m.