makeRG {RMAGEML} | R Documentation

## Creation of a RGList object

### Description

This function creates a RGList object.

### Usage

    makeRG(mageOM, genes, directory = ".", QTD = "none", DED = "none",  name.Rf = "none", name.Rb = "none", name.Gf = "none" ,name.Gb = "none")

### Arguments

`mageOM` | Reference to MAGE Object Model
`directory` | Directory which contains the MAGEML files that need to be imported
`genes` | the Gnames marrayInfo object e.g. created by getGnames
`QTD` | the Quantitation Type Dimension
`DED` | the Design Element Dimension
`name.Rf` | the name of the red foreground intensity
`name.Rb` | the name of the red background intensity
`name.Gf` | the name of the green foreground intensity
`name.Gb` | the name of the green background intensity

### Author(s)

Steffen Durinck, http://www.esat.kuleuven.ac.be/~sdurinck
Joke Allemeersch, http://www.esat.kuleuven.ac.be/~jallemee.

### References

Spellman PT, Miller M, Stewart J, Troup C, Sarkans U, Chervitz S, Bernhart D, Sherlock G, Ball C, Lepage M, Swiatek M, Marks WL, Goncalves J, Markel S, Iordan D, Shojatalab M, Pizarro A, White J, Hubley R, Deutsch E, Senger M, Aronow BJ, Robinson A, Bassett D, Stoeckert CJ Jr and Brazma A. Design and implementation of microarray gene expression markup language (MAGE-ML). Genome Biol. 2002 Aug 23;3(9):RESEARCH0046.

### See Also

`importMAGEOM`, `getArrayLayoutLimma`

### Examples

    data<-system.file("MAGEMLdata", package="RMAGEML")
    #To obtain a marrayInfo object containing the database identifiers of the features present on the array.#
    mageom<-importMAGEOM(directory=data)
    genes<-getArrayLayoutLimma(mageom, DED = "DED:707")
    makeRG(mageOM=mageom, genes = genes, directory=data, DED = "DED:707", QTD = "QTD:707", name.Rf = "QT:F635 Mean", name.Rb = "QT:B635 Median", name.Gf = "QT:F532 Mean" ,name.Gb = "QT:B532 Median")

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