hypeR {hypeR} | R Documentation

## Perform hyper enrichment

### Description

Perform hyper enrichment

### Usage

    hypeR(symbols, gsets, bg = 23467, min.drawsize = 4, pval.cutoff = 1,
      fdr.cutoff = 1, verbose = FALSE)

### Arguments

`symbols` | A character vector of gene symbols
`gsets` | A list of gene sets
`bg` | Size or character vector of background population genes
`min.drawsize` | Min number of drawn items that must be among categories items
`pval.cutoff` | Filter results to be less than pval cutoff
`fdr.cutoff` | Filter results to be less than fdr cutoff
`verbose` | Use false to suppress logs

### Value

A hyper dataframe

### Examples

    # Grab a list of curated gene sets
    REACTOME <- ex_get("C2.CP.REACTOME")

    # Genes involed in tricarboxylic acid cycle
    symbols <- c("IDH3B","DLST","PCK2","CS","PDHB","PCK1","PDHA1","LOC642502",
                 "PDHA2","LOC283398","FH","SDHD","OGDH","SDHB","IDH3A","SDHC",
                 "IDH2","IDH1","OGDHL","PC","SDHA","SUCLG1","SUCLA2","SUCLG2")

    # Perform hyper enrichment
    hyp <- hypeR(symbols, REACTOME, bg=2522, fdr=0.05)

[Package hypeR version 1.00.0 Index]