metaX (version 1.4.0)

plotNetwork: Plot correlation network map

Description

Plot correlation network map

Usage

plotNetwork(para, group, valueID = "value", cor.thr = 0.95, degree.thr = 10, size.factor = 0.5, layout = layout_in_circle, showPlot = FALSE, ...)

Arguments

para

A metaXpara object

group

Samples used for plot

valueID

The name of the column that used for plot

cor.thr

Threshold of correlation

degree.thr

Threshold of degree of node

size.factor

Node size factor for plot

layout

layout for plotting

showPlot

Whether or not to print the figure to screen

...

Additional parameter

Value

An object of igraph

Examples

para <- new("metaXpara")
pfile <- system.file("extdata/MTBLS79.txt",package = "metaX")
sfile <- system.file("extdata/MTBLS79_sampleList.txt",package = "metaX")
rawPeaks(para) <- read.delim(pfile,check.names = FALSE)
sampleListFile(para) <- sfile
para <- reSetPeaksData(para)
para <- missingValueImpute(para)
gg <- plotNetwork(para,group=c("S","C"),degree.thr = 10,cor.thr = 0.8)