caOmicsV (version 1.2.0)

bioNetCircosPlot: caOmicsV bioNetCircos Layout Plot

Description

Plot one track of caOmics data on each node of a biological network. Supported plot types include polygon, bar, points, heatmap, and lines.

Usage

bioNetCircosPlot(dataValues=NULL, plotType="polygon", outer, inner,  plotColors=NULL, maxValue=NULL, minValue=NULL)

Arguments

dataValues

an numeric matrix with columns for samples and rows for genes

plotType

character vector for plot type, supporting polygon, points, and lines.

outer

non-negative numeric, outer location of a data track

inner

non-negative numeric, inner location of a data track

plotColors

character vector specifying colors for plot items

maxValue

numeric, the biggest value of plot data or user defined top threshold. Set to NULL to use the biggest value in dataset.

minValue

numeric, the smallest value of plot data or user defined bottom threshold. Set to NULL to use the smallest value in dataset.

Value

None

Examples

    data(bionetPlotDemoData)
    expr <- bionetPlotDemoData$heatmapData[[1]]
    bioNet <- bc3net(expr) 
    initializeBioNetCircos(bioNet, totalSamples=60)
    showBioNetNodesLayout()

    binaryData <- bionetPlotDemoData$binaryData[[1]]
    sampleColors <- c(rep("blue", ncol(binaryData)))
    plotType <- "points"
    inner <- 2
    outer <- 3
    bioNetCircosPlot(binaryData, plotType, outer, inner, sampleColors)