getGeneInteractionsFromReactomeMITAB: Get a gene interaction data frame from a reactome ppi mitab...

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

Description

Get a gene interaction data frame from a reactome ppi mitab data frame

Usage

getGeneInteractionsFromReactomeMITAB(mitab, usmap)

Arguments

mitab	- The mitab data frame containing PPI's See downloadReactomeInteractionsMITAB
usmap	- A mapping file between UniProt ID's and HGNC Symbols See getUniProtToHGNCSymbolMapping

Value

a data frame that contains the gene interaction graph in two columns, the first being the source HGNCSymbol and the second being the target HGNCSymbol of an interaction

See Also

downloadReactomeInteractionsMITAB

Examples

## Not run: 
     data_folder=tempdir()
     usmap<-getUniProtToHGNCSymbolMapping(data_folder)
     mitab <- downloadReactomeInteractionsMITAB(data_folder)
     geneInteractions <- getGeneInteractionsFromReactomeMITAB(mitab,usmap)

## End(Not run)

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