HyperGTestGeneEnrichment: Hyper Geometric Geneset Enrichement Test

In gevaertlab/AMARETTO: Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis and Penalized Regression

Hyper Geometric Geneset Enrichement Test

Description

Calculates the p-values for unranked gene set enrichment based on two gmt files as input and the hyper geometric test.

Usage

HyperGTestGeneEnrichment(gmtfile, testgmtfile, NrCores,
  ref.numb.genes = 45956)

Arguments

gmtfile	The gmt file with reference gene set.
testgmtfile	The gmt file with gene sets to test. In our case, the gmt file of the modules.
NrCores	Number of cores used for parallelization.
ref.numb.genes	The total number of genes teste, standard equal to 45 956 (MSIGDB standard).

Value

result

gevaertlab/AMARETTO documentation built on April 6, 2023, 2:43 p.m.