qc.affy {simpleaffy}R Documentation

Generate Affymetrix Style QC Statistics

Description

Generates Affymetrix style QC statistics as defined in Affymetrix' 'Data Analysis Fundamentals' handbook

Usage

qc.affy(unnormalised,normalised=NULL,tau=0.015,logged=TRUE,
        cdfn=cleancdfname(cdfName(unnormalised)))

Arguments

unnormalised An unnormalised raw AffyBatch object to call qc stats on
normalised The same one, processed using justMAS (contains scale factors etc.). If not supplied, then the object gets calculated internally.
tau used by detection p value
logged True if the data is logged
cdfn The cdf name for the array - can be used to specify a different set of probes to the default

Value

A QCStats object describing the supplied AffyBatch

Author(s)

Crispin J Miller

Examples

  ## Not run: 
     qc <- qc(eset,eset.mas)
  
## End(Not run)

[Package simpleaffy version 2.08 Index]