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Last data update: 2014.03.03

R: Draw Legend for caOmicsV bioNet Plot

bioNetLegend

R Documentation

Draw Legend for caOmicsV bioNet Plot

Description

The bioNet legend includes a heatmap color scale and names for each track, such as "1. Tissue: T(red), N(blue)", "2. Methylation", "3. miRNA hsa-mir-424", "4. Gene Expression", ... A graphic device and igraph object must be initialized first.

Usage

    bioNetLegend(dataNames, textCoor=NULL, heatmapCoor=NULL,
        scaleWidth, scaleHeight, heatmapMin=-3, heatmapMax=3,  
        colorType="BlueWhiteRed", direction="h")

Arguments

`dataNames`	character vector, names of data on each circular track
`textCoor`	numeric vector of length 2, x and y coordinates for legend text.
`heatmapCoor`	numeric vector of length 2, x and y coordinates for heatmap colour scale
`scaleWidth`	non-negative numeric, length (width) of heatmap color scale
`scaleHeight`	non-negative numeric, height of heatmap color scale
`heatmapMin`	numeric, minimum value of heatmap color scale, default -3 (z-score)
`heatmapMax`	numeric, maximum value of heatmap color scale, default 3 (z-score)
`colorType`	character vector, one of "BlueWhiteRed", "GreenWhiteRed", "GreenYellowRed", "GreenBlackRed" , or "YellowToRed"
`direction`	character, direction of heatmap color scale, either 'h' for horizontal or 'v' for vertical.

Value

None

Author(s)

Henry Zhang

Examples

    data(bionetPlotDemoData)
    plotBioNetCircos(bionetPlotDemoData)
    dataNames <- c("Tissue Type", "RNASeq", "miRNASeq", "Methylation", "CNV")
    bioNetLegend(dataNames)

Results


R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(caOmicsV)
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
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/caOmicsV/bioNetLegend.Rd_%03d_medium.png", width=480, height=480)
> ### Name: bioNetLegend
> ### Title: Draw Legend for caOmicsV bioNet Plot
> ### Aliases: bioNetLegend
> ### Keywords: methods
> 
> ### ** Examples
> 
>     data(bionetPlotDemoData)
>     plotBioNetCircos(bionetPlotDemoData)
[1] "plot polygon"
[1] "plot heatmap"
[1] "plot heatmap"
[1] "plot bar"
[1] "plot points"
>     dataNames <- c("Tissue Type", "RNASeq", "miRNASeq", "Methylation", "CNV")
>     bioNetLegend(dataNames)
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>