PANR (version 1.18.0)

exportPAN: 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

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)