initializeBioMatrixPlot: Set Up Parameters for caOmicsV bioMatrix Plot Layout

In caOmicsV: Visualization of multi-dimentional cancer genomics data

Description

Initialize parameters for caOmicsV bioMatrix layout to set up plot area size and item sizes.

Usage

    initializeBioMatrixPlot(numOfGenes=100, numOfSamples=100,   
        numOfPhenotypes=1, sampleHeight=0.4, sampleWidth=0.1,   
        columnPadding=0.025, rowPadding=0.1, geneNameWidth=1,   
        remarkWidth=1, summaryWidth=1, sampleNameHeight=1, 
        legendHeight=1)

Arguments

numOfGenes	non-negative numeric, total number of genes to be plotted
numOfSamples	non-negative numeric, total number of samples to be plotted
numOfPhenotypes	non-negative numeric, total number of phenotypes to be plotted
sampleHeight	non-negative numeric, height of rectangle area in inch for a sample plot
sampleWidth	non-negative numeric, width of rectangle area in inch for a sample plot
columnPadding	non-negative numeric, width of padding, in inch, between two rectangles (samples)
rowPadding	non-negative numeric, height of padding in inch between two rows (genes)
geneNameWidth	non-negative numeric, width of plot area in inch for gene name plot
remarkWidth	non-negative numeric, width of plot area in inch for second set of gene names and summary data.
summaryWidth	non-negative numeric, width of data plot area in inch to plot summary info in text or bars.
sampleNameHeight	non-negative numeric, height of plot area in inch for sample names (sample name are plotted vertically).
legendHeight	non-negative numeric, height of plot area in inch for legend.

Value

None

Author(s)

Henry Zhang

Examples

    initializeBioMatrixPlot(numOfGenes=100, numOfSamples=100,
        numOfPhenotypes=1, sampleHeight=0.4, sampleWidth=0.1,
        columnPadding=0.025, rowPadding=0.1, geneNameWidth=1,
        remarkWidth=1, summaryWidth=1, sampleNameHeight=1, 
        legendHeight=1)

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