getGeneSets: Get the mitochondrial gene sets

In CaluraLab/mitology: Study of mitochondrial activity from RNA-seq data

Get the mitochondrial gene sets

Description

It returns the mitochondrial gene sets (in form of list or data frame) of the four possible databases: "MitoCarta", "Reactome", "GO-CC" and "GO-BP".

Usage

getGeneSets(
  database = "MitoCarta",
  nametype = "ENSEMBL",
  objectType = "list",
  sections = FALSE
)

Arguments

database	character string saying the database to use for the analysis. Either one of "MitoCarta", "Reactome", "GO-CC" and "GO-BP".
nametype	character string saying the type of gene name ID. Either one of "SYMBOL", "ENTREZID" or "ENSEMBL".
objectType	character string saying the type of needed object. Either one of "list" or "dataframe".
sections	logical. Either to keep the aggregated gene set categories or the specific gene sets. Default is FALSE.

Value

the mitochondrial gene sets.

Examples

MClist <- getGeneSets()

CaluraLab/mitology documentation built on April 14, 2025, 8:26 a.m.