toSifnx {paxtoolsr} | R Documentation |
Converts BioPAX OWL file to extended binary SIF representation
toSifnx(inputFile, outputFile = tempfile(), idType = "uniprot")
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) |
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.
see readSifnx()
inputFile <- system.file("extdata", "raf_map_kinase_cascade_reactome.owl", package="paxtoolsr") results <- toSifnx(inputFile=inputFile)