lumiMethyStatus {lumi}R Documentation

Estimate the methylation status of individual methylation sites

Description

Estimate the methylation status of individual methylation sites by fitting a two component Gamma mixture model for each sample

Usage

lumiMethyStatus(methyLumiM, ...)

Arguments

methyLumiM

a MethyLumiM class object

...

Other parameters used by methylationCall

Details

This function calls methylationCall and returns the methylation status of individual methylation sites. The methylation status includes: "Unmethy" (unmethylation probability > unmethylation threshold), "Methy" (methylation probability > methylation threshold), or "Margin". The methylation probability is returned as an attribute of "probability".

Value

return a methylation status matrix with "probability" attribute

Author(s)

Pan Du

See Also

See Also methylationCall and gammaFitEM

Examples

data(example.lumiMethy)
methyCall <- lumiMethyStatus(example.lumiMethy)
head(methyCall)


[Package lumi version 2.46.0 Index]