plotBioMatrixCategoryData: Plot Category Data on caOmicsV bioMatrix Layout

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

Description

Draw rectangle outline for one or more row(s) of samples to represent categorical values. This function highlights all samples on each row. bioMatrix layout and graphic device must be initialized first.

Usage

    plotBioMatrixCategoryData(categoryData, 
            areaName=c("omicsData", "phenotype"), 
            sampleColors=palette(), 
            lineWidth=1, skipPlotRow=0)

Arguments

categoryData	vector or matrix of categorical values, such as 'High', 'low', and 'No'
areaName	character vector, either "omicsdata" or "phenotype"
sampleColors	character vector for color names or vector of R color specification
lineWidth	non-negative integer, graphic parameter for lwd (line width), default 1
skipPlotRow	non-negative integer, total rows on plot area that should be skipped when only one row to plot, default 0.

Value

None

Author(s)

Henry Zhang

Examples

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

    categoryData <- matrix(c(rep(1, 15), rep(0, 20), rep(1, 15)), nrow=1)
    plotBioMatrixCategoryData(categoryData, areaName="omicsData") 

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