combineData {cn.farms} | R Documentation

## Combine two ExpressionSet objects

### Description

Suitable for SNP or non-polymorphic data which were already processed with single locus FARMS

### Usage

    combineData(object01, object02, obj01Var = "intensity",
      obj02Var = "intensity", runtype = "ff", saveFile = "combData")

### Arguments

`object01` | An instance of `ExpressionSet` either with SNP or non-polymorphic data
`object02` | An instance of `ExpressionSet` either with SNP or non-polymorphic data
`obj01Var` | States the variable which should be combined from the assayData slot. Default is intensity.
`obj02Var` | States the variable which should be combined from the assayData slot. Default is intensity.
`runtype` | Mode how the results are saved. Possible values are ff or bm. If ff is chosen the data will not be saved automatically. With bm the results will be saved permanently.
`saveFile` | Name of the file to save.

### Value

An instance of `ExpressionSet`.

### Author(s)

Djork-Arne Clevert okko@clevert.de and Andreas Mitterecker mitterecker@bioinf.jku.at

### Examples

    load(system.file("exampleData/normData.RData", package = "cn.farms"))
    notes(experimentData(normData))$annotDir <-
            system.file("exampleData/annotation/pd.genomewidesnp.6/1.1.0",
                    package = "cn.farms")
    summaryMethod <- "Variational"
    summaryParam <- list()
    summaryParam$cyc <- c(10)
    slData <- slSummarization(normData,
            summaryMethod = summaryMethod,
            summaryParam = summaryParam)
    assayData(slData)$L_z[1:10, ]
    combData <- combineData(slData, slData)
    combData

[Package cn.farms version 1.28.0 Index]