gsea: Enrichment analysis for any type of annotation data

Description Usage Arguments Author(s)

View source: R/GSEA.R

Description

Enrichment analysis for any type of annotation data

Usage

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gsea(
  x,
  annot,
  annot.info = NULL,
  minSize = 15,
  maxSize = 500,
  nperm = 5000,
  filename = NULL,
  padj.method = "BH",
  table = TRUE
)

Arguments

x

a vector include all log2FC with gene name

annot

annotation file for all genes

annot.info

Term with annotation details

minSize

Minimal size of a gene set to test. All pathways below the threshold are excluded.

maxSize

Maximal size of a gene set to test. All pathways above the threshold are excluded.

nperm

Number of permutations to do. Minimial possible nominal p-value is about 1/nperm

filename

output filename

padj.method

p value adjust method

Author(s)

Kai Guo


guokai8/Enrichr documentation built on May 16, 2020, 10:24 p.m.