varAdjust {RNAither} | R Documentation

## Variance adjustment

### Description

Divides the intensity values by their median absolute deviation (of the experiment or of the plate)

### Usage

    varAdjust(header, dataset, listOfArgs)

### Arguments

`header` | the header of a dataset file generated with `generateDatasetFile`
`dataset` | an R data frame generated with `generateDatasetFile`
`listOfArgs` | a list containing: - a character string specifying the column whose values will be used for normalization - 1 or 2, 1 meaning a normalization per screen, 2 a normalization per plate - a flag specifying whether controls should be excluded for the computation of the median absolute deviation (1) or not (0).

### Value

Divides the intensity values by their median absolute deviation (of the experiment or of the plate).
Returns a list containing:

`header` | The new header (with an added entry about the normalization procedure in the comments)
`dataset` | The new dataset with normalized values. The old values are saved in an extra column of the dataset with the suffix ".old"

### Examples

    data(exampleHeader, package="RNAither")
    data(exampleDataset, package="RNAither")

    normres <- varAdjust(header, dataset, list(1, "SigIntensity", 1))
    newheader <- normres[[1]]
    newdataset <- normres[[2]]

[Package RNAither version 1.4.2 Index]