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affy

affy.scalevalue.exprSet

Scale normalization for expreSets

Description

Normalizes expression values using the method described in the Affymetrix user manual.

Usage

affy.scalevalue.exprSet(eset, sc = 500, analysis="absolute")

Arguments

eset

An ExpressionSet object.
sc

Value at which all arrays will be scaled to.
analysis

Should we do absolute or comparison analysis, although "comparison" is still not implemented.

Details

This is function was implemented from the Affymetrix technical documentation for MAS 5.0. It can be downloaded from the website of the company. Please refer to this document for details.

Value

A normalized ExpressionSet.

Author(s)

Laurent

affy

Methods for Affymetrix Oligonucleotide Arrays

v1.68.0
LGPL (>= 2.0)
Authors
Rafael A. Irizarry <rafa@ds.harvard.edu>, Laurent Gautier <lgautier@gmail.com>, Benjamin Milo Bolstad <bmb@bmbolstad.com>, and Crispin Miller <cmiller@picr.man.ac.uk> with contributions from Magnus Astrand <Magnus.Astrand@astrazeneca.com>, Leslie M. Cope <cope@mts.jhu.edu>, Robert Gentleman, Jeff Gentry, Conrad Halling <challing@agilixcorp.com>, Wolfgang Huber, James MacDonald <jmacdon@u.washington.edu>, Benjamin I. P. Rubinstein, Christopher Workman <workman@cbs.dtu.dk>, John Zhang
Initial release

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