justMAS {simpleaffy}R Documentation

Generate Expression calls using a C implementation of the MAS 5.0 Algorithm

Description

Implements the MAS5.0 background correction, expression summary and scaling functions as described in Affy's 'Statistical Algorithms Description Document'

Usage

  justMAS(unnormalised,tgt=100,scale=TRUE)

Arguments

unnormalised An unnormalised AffyBatch object
tgt The target intensity to scale array to, if scaling.
scale Scale the data to the specified target intensity.

Details

Uses a C code implementation of the MAS5.0 algorithm (As described in Affymetrix's 'Statistical Algorithms Reference Guide' - see http://www.affymetrix.com/support/technical/technotes/statistical_reference_guide.pdf).

Value

An AffyBatch object, with, in addition, scale-factors for each array stored in the object's description@preprocessing@sfs slot, and the target intensity the arrays were scaled to in description@preprocessing@tgt

Author(s)

Crispin J Miller

See Also

http://www.affymetrix.com/support/technical/technotes/statistical_reference_guide.pdf


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