caOmicsV (version 1.2.0)

plotBioMatrixBinaryData: Binary Data Plot on caOmicsV bioMatrix Layout

Description

Plot binary data as points in the inside of each rectangle(sample). This function plot all rows on omics data area and only the positive samples will be shown with colored points. For one row plot, pass data as vector and supply correct skipPlotRow parameter to define where to plot. bioMatrix layout and graphic device must be initialized first.

Usage

plotBioMatrixBinaryData(binaryData, areaName="omicsData", scatterType=19,  scatterSize=1, totalSubRow=1, subRowIndex=1, sampleColor="black",  skipPlotRow=0)

Arguments

binaryData

vector or matrix with values of 0 and 1 only

areaName

character vector, either "omicsData" or "phenotype"

scatterType

non-negative integer, same as pch, default 19

scatterSize

non-negative numeric, same as cex

totalSubRow

non-negative integer, how many sub-rows in a sample area

subRowIndex

non-negative integer, which subrow will be plotted

sampleColor

character vector for color name(s) or R color specification

skipPlotRow

non-negative integer, total rows on plot area that should be skipped, default 0

Value

None

Examples

    initializeBioMatrixPlot(numOfGenes=1, numOfSamples=50)
    showBioMatrixPlotLayout("Gene", paste("Sample", 1:50),  "Diagnosis")

    binaryData <- matrix(c(rep(1, 15), rep(0, 20), rep(1, 15)), nrow=1)
    plotBioMatrixBinaryData(binaryData, scatterType=16)