plotBioNetCircos: Default Plot Method for caOmicsV bioNetCircos Layout

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

Description

A sample way to plot sample information and genomic data with default settings. This method is mainly for demo purpose. In most cases, users need make changes based on this display, specifically the igraph layout.

Usage

    plotBioNetCircos(dataSet, graph=NULL, heatmapMax=NULL, heatmapMin=NULL, 
            heatmapColor="BlueWhiteRed")

Arguments

dataSet	an object returned from method of getESet() that contains all data for plot
graph	an igraph object generated with one plot dataset, e.g, gene expression value
heatmapColor	character vector, one of "BlueWhiteRed", "GreenWhiteRed", "GreenYellowRed", "GreenBlackRed", "YellowToRed", and "Black".
heatmapMax	numeric, maximum value for heatmap plot, set to NULL to use the biggest value in input data set.
heatmapMin	numeric, minimum value for heatmap plot, set to NULL to use the smallest value in input data set.

Value

None

Author(s)

Henry Zhang

Examples

    data(bionetPlotDemoData)
    plotBioNetCircos(bionetPlotDemoData)

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