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

Examples


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


[Package sparrow version 0.99.6 Index]