plotBioNetHeatmap: Heatmap Plot for Each Node on caOmicsV bioNetCircos Layout

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

Description

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

Usage

    plotBioNetHeatmap(dataValues, maxValue=NULL, minValue=NULL, 
            outer, inner, plotColors)

Arguments

dataValues	numeric matrix of log2 values for heatmap plot. Total rows of the matrix must be same as the number of nodes and rownames must be same as the vertex names in bioNetGraph
maxValue	numeric, the biggest value of plot data
minValue	numeric, the smallest value of plot data
outer	non-negative numeric, the outside boundary of plot area from node center
inner	non-negative numeric, the inside boundary of plot area close to node center
plotColors	character vector, one of "BlueWhiteRed", "GreenWhiteRed", "GreenYellowRed", "GreenBlackRed", "YellowToRed", "BlackOnly".

Value

None

Author(s)

Henry Zhang

Examples

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

    initializeBioNetCircos(bioNet, totalSamples=60)
    showBioNetNodesLayout()
    plotBioNetHeatmap(expr, outer=3, inner=2, plotColors="BlueWhiteRed")

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