loadPathwayDataReactome: Load pathway data from Reactome

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

Description

Load pathway data from Reactome

Usage

loadPathwayDataReactome(pdata, usmap)

Arguments

pdata	a data frame containing three columns, uniProtID, reactomeID, reactomeDescription which stand for the protein identifier, pathway identifier and the pathway description. See downloadReactomePathways,for more details
usmap	A mapping file between UniProt ID's and HGNC Symbols See getUniProtToHGNCSymbolMapping

Value

A list containing two elements - pathways- a single column data frame with description string for each unique pathway id memberships - a list of character vectors of gene ids indexed by pathway id, containing the list of hgnc symbols of genes in each pathway.

Examples

## Not run: 
     dataFolder <- tempdir()
     rawPathwayData<-downloadReactomePathways(dataFolder)
     pdata<-loadPathwayDataReactome(pdata)

## End(Not run)

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