combo {wateRmelon} | R Documentation

## Combine MethyLumiSet objects

### Description

This is a wrapper for combining different MethyLumiSet objects.

### Usage

    combo(...)

### Arguments

`...` | Eventually, any number of MethyLumiSet objects. Currently only guaranteed for 2 objects.

### Details

This is a wrapper for `methylumi::combine`, which works around a name clash with a different combine function from the `gdata` package, and also a bug in `methylumi::combine`.

### Value

a `MethyLumiSet`. The `assayData`, `QCdata`, `experimentData`, `protocolData` and `phenoData` are joined on `sampleName` . `featureData` and annotation are taken from the object given in the first argument

### Note

the function uses `sampleNames` and gets rid of duplicates. Numeric sampleNames cause problems (and are a Bad Idea anyway). They should be turned into names with `make.names()` first.

### Author(s)

Leo Schalkwyk <leonard.schalkwyk@kcl.ac.uk>

### References

[1] Pidsley R, Wong CCY, Volta M, Lunnon K, Mill J, Schalkwyk LC: A data-driven approach to preprocessing Illumina 450K methylation array data (submitted)

### See Also

`as.methylumi`

### Examples

    library(wateRmelon)
    data(melon)
    ## pretend we have two different data sets
    melon
    pelon <- melon
    sampleNames(pelon) <- gsub('^6', 7, sampleNames(pelon))
    combo(melon, pelon)

[Package wateRmelon version 1.28.0 Index]