getReactomeCollection {sparrow} | R Documentation

## Retrieve gene set collections from from reactome.db

### Description

Retrieve gene set collections from from reactome.db

### Usage

    getReactomeCollection(
      species = "human",
      id.type = c("entrez", "ensembl"),
      rm.species.prefix = TRUE
    )

    getReactomeGeneSetDb(
      species = "human",
      id.type = c("entrez", "ensembl"),
      rm.species.prefix = TRUE
    )

### Arguments

`species` | the species to get pathay information for
`id.type` | `"entrez"` or `"ensembl"`
`rm.species.prefix` | pathways are provided with species prefixes from `reactome.db`, when `TRUE` (default), these are stripped from the gene set names.

### Value

a reactome BiocSet object

### Functions

- `getReactomeGeneSetDb`: returns a GeneSetDb object

### Examples

      bsc.h <- getReactomeCollection("human")
      gdb.h <- getReactomeGeneSetDb("human")

[Package sparrow version 1.0.3 Index]