normalize.contrast: Normalize intensities using the contrasts method

In Bioconductor/affy: Methods for Affymetrix Oligonucleotide Arrays

Normalize intensities using the contrasts method

Description

Scale chip objects in an AffyBatch-class.

Usage

normalize.AffyBatch.contrasts(abatch,span=2/3, choose.subset=TRUE,
                              subset.size=5000, verbose=TRUE,
                              family="symmetric",
                              type=c("together","pmonly","mmonly","separate"))

Arguments

abatch	an AffyBatch-class object.
span	parameter to be passed to the function loess.
choose.subset	Boolean. Defaults to TRUE
subset.size	Integer. Number of probesets to use in each subset.
verbose	verbosity flag.
family	parameter to be passed to the function loess.
type	a string specifying how the normalization should be applied.

Value

An object of the same class as the one passed.

See Also

maffy.normalize

Bioconductor/affy documentation built on July 21, 2023, 5:23 p.m.