getShortestPathSif {paxtoolsr} | R Documentation

## Get the shortest between two IDs (HGNC or CHEBI)

### Description

Get the shortest between two IDs (HGNC or CHEBI)

### Usage

    getShortestPathSif(sif, idA, idB, mode = c("all", "out", "in"),
      weights = NULL, verbose = FALSE, filterFun, ...)

### Arguments

`sif` | a SIF network
`idA` | HGNC or CHEBI (CHEBI:XXXXX) ID
`idB` | HGNC or CHEBI (CHEBI:XXXXX) ID
`mode` | see shortest_paths() in igraph
`weights` | see shortest_paths() in igraph
`verbose` | a boolean whether to show debugging information
`filterFun` | a function to filter multiple paths of the same length
`...` | additional arguments passed on to filterFun

### Value

a data.frame representing a SIF network

### Examples

    idA <- "DAP3"
    idB <- "RPS16"
    sif <- readSif(system.file("extdata", "test_sif_shortestPath.txt", package="paxtoolsr"))
    filterFun <- function(vpaths) { idx <- sample(1:length(vpaths), 1); return(vpaths[[idx]]) }
    m1 <- getShortestPathSif(sif, idA, idB, mode="all", weights=NULL, filterFun=filterFun, verbose=TRUE)

[Package paxtoolsr version 1.16.0 Index]