exportNetwork: Save network in various formats

In jianhong/GeneNetworkBuilder: GeneNetworkBuilder: a bioconductor package for building regulatory network using ChIP-chip/ChIP-seq data and Gene Expression Data

Save network in various formats

Description

Save graph into HTML, json or xgmml format.

Usage

exportNetwork(network, file, format = c("HTML", "json", "XGMML"), ...)

Arguments

network	output of browseNetwork
file	Name of the file to save to.
format	type in which graph shall be saved. Could be one of HTML, json or XGMML.
...	Parameter could be used by saveWidget for HTML or writeLines for json or saveXML for XGMML.

Examples

data("ce.miRNA.map")
data("example.data")
data("ce.interactionmap")
data("ce.IDsMap")
sifNetwork<-buildNetwork(example.data$ce.bind, ce.interactionmap, level=2)
cifNetwork<-filterNetwork(rootgene=ce.IDsMap["DAF-16"], sifNetwork=sifNetwork, 
  exprsData=uniqueExprsData(example.data$ce.exprData, "Max", condenseName='logFC'),
  mergeBy="symbols",
  miRNAlist=as.character(ce.miRNA.map[ , 1]), tolerance=1)
gR<-polishNetwork(cifNetwork)
network <- browseNetwork(gR)
exportNetwork(network, "sample.html")

jianhong/GeneNetworkBuilder documentation built on Oct. 26, 2023, 3:45 a.m.