load_tf_regulon_dorothea: load transcription factor regulon

In saezlab/COSMOS: COSMOS (Causal Oriented Search of Multi-Omic Space)

load transcription factor regulon

Description

load the transcription factors from DOROTHEA package and converts gene symbols to EntrezID using org.Hs.eg.db

Usage

load_tf_regulon_dorothea(confidence = c("A", "B", "C"))

Arguments

confidence

strong vector (by default: c("A","B","C")). Subset of {A, B, C, D, E}. See the 'dorothea' for the meaning of confidence levels. package for further details.

Value

returns a PKN of a form of a data table. Each row is an interaction. Columns names are:

- 'tf' transcription factor - 'confidence' class of confidence - 'target' target gene - 'sign' indicates if interaction is up (1) or down-regulation (-1).

Examples

load_tf_regulon_dorothea()

saezlab/COSMOS documentation built on Sept. 17, 2023, 1:22 p.m.