aREA: analytic Rank-based Enrichment Analysis

In viper: Virtual Inference of Protein-activity by Enriched Regulon analysis

Description

This function performs wREA enrichment analysis on a set of signatues

Usage

aREA(eset, regulon, method = c("auto", "matrix", "loop"), minsize = 20,
  cores = 1, wm = NULL, verbose = FALSE)

Arguments

eset	Matrix containing a set of signatures, with samples in columns and traits in rows
regulon	Regulon object
method	Character string indicating the implementation, either auto, matrix or loop
minsize	Interger indicating the minimum allowed size for the regulons
cores	Integer indicating the number of cores to use (only 1 in Windows-based systems)
wm	Optional numeric matrix of weights (0; 1) with same dimension as eset
verbose	Logical, whether a progress bar should be shown

Value

List of two elements, enrichment score and normalized enrichment score

viper documentation built on Nov. 8, 2020, 7:37 p.m.