preprocessFunnorm.DNAmArray: preprocessFunnormv2

In molepi/DNAmArray: Streamlined workflow for the quality control, normalization and bias-free analysis of Illumina methylation array data - The Leiden approach

preprocessFunnormv2

Description

preprocessFunnorm from minfi with additional return options

Usage

preprocessFunnorm.DNAmArray(
  rgSet,
  nPCs = 2,
  sex = NULL,
  bgCorr = TRUE,
  dyeCorr = TRUE,
  verbose = TRUE,
  keepCN = TRUE,
  ...
)

Arguments

rgSet	object of class 'RGChannelSet'
nPCs	number of PC to use for normalization
sex	vector of sexes of each sample
bgCorr	logical TRUE/FALSE
dyeCorr	logical TRUE/FALSE
verbose	logical TRUE/FALSE
keepCN	logical TRUE/FALSE
...	optional arguments to ratioConvert

Details

preprocessFunnorm from minfi with additional return options: keepCN and what

Value

object of class 'GenomicRatioSet'

Author(s)

mvaniterson

molepi/DNAmArray documentation built on Aug. 24, 2022, 1:42 p.m.