RNAither (version 2.20.0)

BScore: BScore normalization

Description

Normalization with BScores (see References).

Usage

BScore(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

- a flag specifying whether controls should be excluded for the computation of the median polish (1) or not (0)

Value

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"

References

C. Brideau, B. Gunter, B. Pikounis, and A. Liaw. Improved statistical methods for hit selection in high-throughput screening. J Biomol Screen, 8:634-647, 2003

Examples

data(exampleHeader, package="RNAither")
data(exampleDataset, package="RNAither")
normres <- BScore(header, dataset, list("SigIntensity", 0))
newheader <- normres[[1]]
newdataset <- normres[[2]]