toSifnx {paxtoolsr} | R Documentation

## Converts BioPAX OWL file to extended binary SIF representation

### Description

Converts BioPAX OWL file to extended binary SIF representation

### Usage

    toSifnx(inputFile, outputFile = tempfile(), idType = "uniprot")

### Arguments

`inputFile` | a string with the name of the input BioPAX OWL file
`outputFile` | a string with the name of the output file for SIFNX information
`idType` | a string either "hgnc" or "uniprot" (DEFAULT: uniprot, more common)

### Details

Information on SIF conversion is provided on the Pathway Commons site: http://www.pathwaycommons.org/pc2/. Also, this is a Java-based methods, it is best to use full paths.

### Value

see readSifnx()

### Examples

    inputFile <- system.file("extdata", "raf_map_kinase_cascade_reactome.owl", package="paxtoolsr")
    results <- toSifnx(inputFile=inputFile)

[Package paxtoolsr version 1.28.0 Index]