exportPAN {PANR} | R Documentation

## Export inferred PAN or module graphs to files

### Description

Powered by function `write.graph` in package `igraph`, this function writes the inferred PAN or module graphs to files in a variety of formats that are supported by igraph.

### Usage

    exportPAN(object, file="pan", what="graph", moduleID=1, format="gml",
    verbose=TRUE, ...)

### Arguments

`object` | an object of S4 class `PAN`.
`file` | the name of the file to write the graph or module (no need to put a filename extension).
`what` | a character value specifying what to write: ‘graph’ or ‘pvclustModule’.
`moduleID` | a numeric or integer vector of modules to write (see details in `sigModules`).
`format` | a character value specifying the format to write (see more details in `write.graph`).
`verbose` | a logical value to switch on (if `TRUE`) or off if `FALSE` detailed run-time message.
`...` | not in use, but only for further extension.

### Value

a numeric vector of ids for significant gene modules

### Author(s)

Xin Wang xw264@cam.ac.uk

### Examples

    ## Not run:
    data(bm, package="PANR")
    pan<-new("PAN", bm1=bm1)
    pan<-infer(pan, para=list(type="SNR", log=TRUE, sign=TRUE, cutoff=log(5)),
    filter=FALSE, verbose=TRUE)
    data(Bakal2007Cluster, package="PANR")
    pan<-buildPAN(pan, engine="igraph", para=list(nodeColor=nodeColor,
    hideNeg=TRUE), verbose=TRUE)
    exportPAN(pan, file="pan", what="graph", format="ncol")

    ## End(Not run)

[Package PANR version 1.26.0 Index]