plotBioNetPoints: Point Plot on caOmicsV bioNetCircos Layout

In hzhanghenry/caOmicsV: Visualization of multi-dimentional cancer genomics data

Description

Point plot on caOmicsv bioNetCircos layout. This method plots one track of points for every node. bioNetCircos layout and graphic device must be initialized first.

Usage

    plotBioNetPoints(dataValues, maxValue=NULL, 
            minValue=NULL, outer, inner, 
            plotColors=rep("black", ncol(dataValues)), 
            sizeByValue=FALSE, pch=".")

Arguments

dataValues	numeric matrix of plot data
maxValue	numeric, the biggest value of plot data
minValue	numeric, the smallest value of plot data
outer	non-negative numeric, the outer boundary of plot area from node center
inner	non-negative numeric, the inner boundary of plot area from node center
plotColors	character vector or vector of R color specification, colors for each sample
sizeByValue	logic, if true, the data value will be used for point size
pch	character for point type, same as the one in par()

Value

None

Author(s)

Henry Zhang

Examples

    data(bionetPlotDemoData)
    expr <- bionetPlotDemoData$heatmapData[[1]]
    bioNet <- bc3net(expr)

    initializeBioNetCircos(bioNet, totalSamples=60)
    showBioNetNodesLayout()
    plotBioNetPoints(expr, outer=3, inner=2)

hzhanghenry/caOmicsV documentation built on May 17, 2019, 10:07 p.m.