GSEA_internal: GSEA_internal

In aiminy/ModifiedDOSE: Disease Ontology Semantic and Enrichment analysis

Description

generic function for gene set enrichment analysis

Usage

GSEA_internal(geneList, exponent, nPerm, minGSSize, maxGSSize, pvalueCutoff,
  pAdjustMethod, verbose, seed = FALSE, USER_DATA, by = "fgsea")

Arguments

geneList	order ranked geneList
exponent	weight of each step
nPerm	permutation numbers
minGSSize	minimal size of each geneSet for analyzing
maxGSSize	maximal size of each geneSet for analyzing
pvalueCutoff	p value Cutoff
pAdjustMethod	p value adjustment method
verbose	print message or not
seed	set seed inside the function to make result reproducible. FALSE by default.
USER_DATA	annotation data
by	one of 'fgsea' or 'DOSE'

Value

gseaResult object

Author(s)

Yu Guangchuang

aiminy/ModifiedDOSE documentation built on May 10, 2019, 7:36 a.m.