lumiMethyR: Reading Illumina methylation microarray data

In lumi: BeadArray Specific Methods for Illumina Methylation and Expression Microarrays

Description

This function is a wrap of methylumiR function in methylumi package.

Usage

lumiMethyR(filename, lib=NULL, controlData=NULL, qcfile=NULL, sampleDescriptions=NULL, sep = NULL)

Arguments

filename	file name output by GenomeStudio
lib	Annotation library of Illumina methylation microarray
controlData	the controlData file name or a MethyLumiQC object to be added to the "controlData" slot of the MethyLumiM object
qcfile	parameter of methylumiR function
sampleDescriptions	parameter of methylumiR function
sep	parameter of methylumiR function

Details

This function is a wrap of methylumiR function in methylumi package. It will coerce the returned object as MethyLumiM class. The methylated and unmethylated probe intensity information is required for color-bias adjustment and normalization. If users have the Illumina IDAT files, we suggest use importMethyIDAT function to import the data. The importMethyIDAT function will automatically retrieve the required information and return a MethyLumiM object.

Value

return a MethyLumiM object

Author(s)

Pan Du

See Also

See Also importMethyIDAT, methylumiR and addControlData2methyLumiM

lumi documentation built on Nov. 8, 2020, 5:27 p.m.