getNeighbors {paxtoolsr} | R Documentation

## Get the neighbors of a set of IDs in a BioPAX file

### Description

This function retrieves a set of neighbors for a set of IDs in a BioPAX file.

### Usage

    getNeighbors(inputFile, outputFile = NULL, idList)

### Arguments

`inputFile` | a string with the name of the input BioPAX OWL file
`outputFile` | a string with the name of the output BioPAX OWL file
`idList` | a vector of IDs from the BioPAX OWL file

### Details

Only entities in the input BioPAX file will be searched for neighbors. IDs used must be URIs for the entities of interest.

### Value

an XMLInternalDocument representing a BioPAX OWL file

### Examples

    outFile <- tempfile()
    results <- getNeighbors(system.file("extdata",
      "raf_map_kinase_cascade_reactome.owl", package="paxtoolsr"),
      outFile,
      c("HTTP://WWW.REACTOME.ORG/BIOPAX/48887#PROTEIN2360_1_9606",
        "HTTP://WWW.REACTOME.ORG/BIOPAX/48887#PROTEIN1631_1_9606"))

[Package paxtoolsr version 1.20.0 Index]