setQCEnvironment: Establish the appropriate QC environment for the specified array
Description
Affymetrix define a series of QC parameters for their arrays. Many of
these rely on specific probeset that differ between arrays and are
used to calculate things like 3'/5' ratios. See qc.affy
for more details. These functions are used to set up the appropriate
QC environment for the specified array. This is done by loading a
configuration file, either from the packages data directory, or from
the specified path. See the package vignette for details of the config
file's syntax.
Usage
setQCEnvironment(array,path=NULL)
Arguments
array
This should be the 'clean' cdf name of the array as generated by
cleancdfname in the affy package.
path
Path to the file. By default, checks the package's own
data directory - only needed if a defininition file is being
specified manually, as described in the vignette.
Value
none.
Details
The usual way to get the 'clean' cdfname is as follows:
cleancdfname(cdfName(eset)), where eset is an
AffyBatch object.