combine27k450k

compare.chips

controlData

controlData<-

Cy3.N

Cy3<-

Cy5.N

Cy5<-

designIItoMandU

designItoMandU

detection

detection<-

diagnostics

getBarcodes

getProtocolData

IDATsToDFs

IDATtoDF

intensities.IB

intensities.M

intensities.OOB

intensities.OOB.allelic

intensities.U

intensitiesByChannel

lumiCSV

lumIDAT

mergeProbeDesigns

methylated.N

methylated.N<-

methylumi.bgcorr

methylumi.diagnostics

methylumiCSV

NChannelSetToMethyLumiSet

negctls

negctls.stderr

negnorm

normctls

plotNAs

plotNegOob

probeNAs

psummary

pval.detect

pval.detect<-

qc.probe.plot

readMethyLumIDAT

sampleNAs

subset27kas450k

subset450kas27k

subsetCommonProbes

total.intensity

unmethylated.N

unmethylated.N<-

dataType

dataType<-

betas,SummarizedExperiment-method

methylated,MethylSet-method

unmethylated,MethylSet-method

betas,GenomicMethylSet-method

betas,MethylSet-method


  See the individual classes for details of methods.


methylumiGenerics

This package provides classes for holding and manipulating
Illumina methylation data.  Based on eSet, it can contain MIAME
information, sample information, feature information, and
multiple matrices of data.  An "intelligent" import function,
methylumiR can read the Illumina text files and create a
MethyLumiSet. methylumIDAT can directly read raw IDAT files from
HumanMethylation27 and HumanMethylation450 microarrays.  Normalization,
background correction, and quality control features for GoldenGate,
Infinium, and Infinium HD arrays are also included.

methylumiGenerics: Generics defined in methylumi

Description

Arguments