browseNetwork: browse network

Description Usage Arguments Value Examples

View source: R/browseNetwork.R

Description

plot network generated by polishNetwork

Usage

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browseNetwork(gR = graphNEL(), layoutType = c("fdp", "dot", "neato",
  "twopi", "circo"), width = NULL, height = NULL, maxNodes = 500, ...)

Arguments

gR

an object of graphNEL

layoutType

layout type. see GraphvizLayouts

width

width of the figure

height

height of the figure

maxNodes

max nodes number to plot. Because if there are two many nodes, the running time will be too long.

...

parameters used by GraphvizLayouts

Value

An object of class htmlwidget that will intelligently print itself into HTML in a variety of contexts including the R console, within R Markdown documents, and within Shiny output bindings.

Examples

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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)
browseNetwork(gR)

GeneNetworkBuilder documentation built on Nov. 17, 2017, 12:12 p.m.