HyperGTestGeneEnrichment: Hyper Geometric Geneset Enrichement Test

Description Usage Arguments Value

View source: R/amaretto_htmlreport.R

Description

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

Usage

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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


AMARETTO documentation built on April 29, 2020, 5:23 a.m.