enrichDGN {DOSE} | R Documentation

## Enrichment analysis based on the DisGeNET (http://www.disgenet.org/)

### Description

given a vector of genes, this function will return the enrichment NCG categories with FDR control

### Usage

    enrichDGN(
      gene,
      pvalueCutoff = 0.05,
      pAdjustMethod = "BH",
      universe,
      minGSSize = 10,
      maxGSSize = 500,
      qvalueCutoff = 0.2,
      readable = FALSE
    )

### Arguments

`gene` | a vector of entrez gene id
`pvalueCutoff` | pvalue cutoff
`pAdjustMethod` | one of "holm", "hochberg", "hommel", "bonferroni", "BH", "BY", "fdr", "none"
`universe` | background genes
`minGSSize` | minimal size of genes annotated by NCG category for testing
`maxGSSize` | maximal size of each geneSet for analyzing
`qvalueCutoff` | qvalue cutoff
`readable` | whether mapping gene ID to gene Name

### Value

A `enrichResult` instance

### Author(s)

Guangchuang Yu

### References

Janet et al. (2015) DisGeNET: a discovery platform for the dynamical exploration of human diseases and their genes. Database bav028 http://database.oxfordjournals.org/content/2015/bav028.long

[Package DOSE version 3.20.1 Index]