multifreqpoly: Frequency polygon plot to display data distribution.

In USCbiostats/ENmixUSC: Data preprocessing and quality control for Illumina HumanMethylation450 and MethylationEPIC BeadChip (USC version)

Description

Produce Frequency polygon plot for each column of a numeric data matrix.

Usage

multifreqpoly(mat, nbreaks=100, col=1:ncol(mat), xlab="", 
              ylab="Frequency",legend = list(x = "top", fill=col,
              legend = if(is.null(colnames(mat))) paste(1:ncol(mat)) 
              else colnames(mat)),...)

Arguments

mat	A numeric matrix
nbreaks	The number of bins for frequency counting
col	Line plot color code, the length should be equal to the number of columns in mat
xlab	x-axis lable
ylab	y-axis lable
legend	A list of arguments that get passed to the function "legend"
...	Further arguments that get passed to the function "plot"

Value

Frequency polygon plot.

Author(s)

Zongli Xu

References

Zongli Xu, Liang Niu, Leping Li and Jack A. Taylor, ENmix: a novel background correction method for Illumina HumanMethylation450 BeadChip. Nucleic Acids Research 2015.

Examples

if(FALSE){
if (require(minfiData)) {
mdat <- preprocessRaw(RGsetEx)
beta=getBeta(mdat, "Illumina")
multifreqpoly(beta,col=rep("black",ncol(beta)))
}}

USCbiostats/ENmixUSC documentation built on June 1, 2019, 3:55 a.m.