plotBioMatrixSampleData: Plot Sample Data on caOmicsV bioMatrix Layout

In caOmicsV: Visualization of multi-dimentional cancer genomics data

Description

Plot colored polygons on phenotype area of caOmicsV bioMatrix layout to show sample information such as diagnosis, tissue type, ... bioMatrix layout and graphic device must be initialized first.

Usage

    plotBioMatrixSampleData(rowNumber, areaName, fillColor=NA, 
        borderColor=NA, topAdjust=0, bottomAdjust=0)

Arguments

rowNumber	non-negative integer, number of the row where the data to be plotted
areaName	character vector, either "phenotype" or "omicsdata"
fillColor	character vector of color names or vector of R color specification
borderColor	character vector or a R colors specification for boarder color
topAdjust	non-negative numeric, height that will be reduced from top
bottomAdjust	non-negative numeric, height that will be reduced from bottom

Value

None

Author(s)

Henry Zhang

Examples

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

    sampleColor <- c(rep("blue", 25), rep("red", 25))
    plotBioMatrixSampleData(rowNumber=1, sampleColor, areaName="phenotype") 

Example output

Loading required package: igraph

Attaching package: 'igraph'

The following objects are masked from 'package:stats':

    decompose, spectrum

The following object is masked from 'package:base':

    union

Loading required package: bc3net
Loading required package: c3net
Loading required package: infotheo
Loading required package: Matrix
Loading required package: lattice

caOmicsV documentation built on Nov. 8, 2020, 8:23 p.m.