NaRnEA: Nonparametric analytical rank-based enrichment analysis...

In califano-lab/NaRnEA: Nonparametric analytical Rank-based Enrichment Analysis - An Information Theoretic Framework for Protein Activity Measurement

Nonparametric analytical rank-based enrichment analysis (NaRnEA) function

Description

Nonparametric analytical rank-based enrichment analysis (NaRnEA) function

Usage

NaRnEA(
  signature,
  association.weight,
  association.mode,
  ledge = TRUE,
  minimum.size = 30,
  seed = 1
)

Arguments

signature	Gene expression signature (named numeric vector)
association.weight	Association Weight values for gene set members (named numeric vector)
association.mode	Association Mode values for gene set members (named numeric vector)
ledge	Flag to compute ledge p-values for gene set members.
minimum.size	Minimum number of gene set members. Default of 30.
seed	Random number generator seed to ensure reproducibility manner. Default of 1.

Value

A list with the Proportional Enrichment Score (PES), Normalized Enrichment Score (NES), and the leading edge p-values (NA if ledge set to FALSE).

califano-lab/NaRnEA documentation built on March 10, 2023, 7:18 p.m.