wateRmelon (version 1.16.0)

pwod: Probe-Wise Outlier Detection

Description

'P'robe-'W'ise 'O'utlier 'D'etection via interquartile ranges.

Usage

pwod(object, mul=4)

Arguments

object

MethyLumiSet, RGChannelSet, MethylSet object or matrix containing betas.

mul

Number of interquartile ranges used to determine outlying probes. Default is 4 to ensure only very obvious outliers are removed.

Value

Returns supplied beta matrix with outlying probes coerced to NA

Details

Detects outlying probes across arrays in methylumi and minfi objects. Outliers are probable low MAF/SNP heterozygotes.

Examples

library(wateRmelon)
data(melon)
cattle <- betas(melon)
new.betas <- pwod(cattle, mul=4)