downloadReactomePathways: Download current Pathway Data from Reactome

In bhatturam/prius: Affected pathway ranking in differential gene expression analysis

Description

Downloads current pathway data (protein-to-pathway mapping) from reactome, saves it in a local directory and returns a data frame usable by the library. It can reuse downloaded files if the downloaded folder is passed as an argument

Usage

downloadReactomePathways(data_folder, species = "HomoSapiens")

Arguments

data_folder	- The folder where the data resides, or where it should be downloaded if it doesnt exist
species	- The species being analysed. Currently only supports the string 'HomoSapiens'

Value

a data frame containing three columns, uniProtID, reactomeID, reactomeDescription which stand for the protein identifier, pathway identifier and the pathway description

References

http://www.reactome.org/pages/download-data/

Examples

## Not run: 
     dataFolder <- tempdir()
     pathwayData<-downloadReactomePathways(dataFolder)

## End(Not run)

bhatturam/prius documentation built on May 12, 2019, 8:24 p.m.