GO_enrichment-ANY-method {cola} | R Documentation

## Perform Gene Ontology Enrichment on Signature Genes

### Description

Perform Gene Ontology Enrichment on Signature Genes

### Usage

    ## S4 method for signature 'ANY'
    GO_enrichment(object,
        id_mapping = guess_id_mapping(object, org_db, verbose),
        org_db = "org.Hs.eg.db", ontology = c("BP", "MF", "CC"),
        min_set_size = 10, max_set_size = 1000,
        verbose = TRUE, ...)

### Arguments

`object` | A vector of gene IDs.
`id_mapping` | If the gene IDs which are row names of the original matrix are not Entrez IDs, a named vector should be provided where the names are the gene IDs in the matrix and values are correspoinding Entrez IDs. The value can also be a function that converts gene IDs.
`org_db` | Annotation database.
`ontology` | "BP": biological processes, "MF": molecular functions, "CC": cellular components.
`min_set_size` | The minimal size of the GO gene sets.
`max_set_size` | The maximal size of the GO gene sets.
`verbose` | Whether to print messages.
`...` | Other arguments.

### Value

A list of three data frames which correspond to results for three GO catalogues:

- `BP`: biological processes

- `MF`: molecular functions

- `CC`: cellular components

### Examples

    # There is no example
    NULL

[Package cola version 1.0.1 Index]