plotBioNetBars: Bar Plot on caOmicsV bioNetCircos Layout

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

Description

Bar plot method for caOmicsV bioNetCircos layout. This will plot one track of bars for every node. bioNetCircos layout and graphic device must be initialized first.

Usage

    plotBioNetBars(dataValues, outer, inner, plotColors)

Arguments

dataValues	numeric matrix with range of 0 ~ 1 for bar height. total rows of the matrix must be same as the number of nodes and row names must be same as the vertex names in bioNetGraph
outer	non-negative numeric, the outside boundary of plot area from node center
inner	non-negative numeric, the inside boundary of plot area from node center
plotColors	character vector or vector of R color specification, color names for each sample, pre-generated to control sample colors.

Value

None

Author(s)

Henry Zhang

Examples

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

    initializeBioNetCircos(bioNet, totalSamples=60)
    showBioNetNodesLayout()

    methyl <- bionetPlotDemoData$categoryData[[1]]
    sampleColors <- c(rep("red", 20), rep("blue", 20), rep("cyan", 20))
    plotBioNetBars(methyl, outer=1.6, inner=1.5, plotColors=sampleColors)

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