minfi (version 1.18.4)

preprocessNoob: The Noob background correction for 450k arrays.

Description

Noob is a background correction method with dye-bias normalization for the Illumina Infinium HumanMethylation450 platform.

Usage

preprocessNoob(rgSet, offset = 15, dyeCorr = TRUE, verbose = TRUE)

Arguments

rgSet

An object of class RGChannelSet.

offset

An offset for the normexp background correction.

dyeCorr

Should dye correction be done?

verbose

Should the function be verbose?

Value

An object of class MethylSet.

References

TJ Triche, DJ Weisenberger, D Van Den Berg, PW Laird and KD Siegmund Low-level processing of Illumina Infinium DNA Methylation BeadArrays. Nucleic Acids Res (2013) 41, e90. doi:10.1093/nar/gkt090.

See Also

RGChannelSet as well as IlluminaMethylationManifest for the basic classes involved in these functions. preprocessRaw and preprocessQuantile are other preprocessing functions.

Examples

## Not run: 
# if (require(minfiData)) {
#   GRset.noob <- preprocessNoob(RGsetEx)
# }
# ## End(Not run)