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 2.40.0 Index]