Description Usage Arguments Details Value Author(s) References See Also Examples
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.
1 | setQCEnvironment(array,path=NULL)
|
array |
This should be the 'clean' cdf name of the array as generated by
|
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. |
The usual way to get the 'clean' cdfname is as follows:
cleancdfname(cdfName(eset))
, where eset
is an
AffyBatch
object.
none.
Crispin J Miller
http://bioinformatics.picr.man.ac.uk/
1 2 | setQCEnvironment("hgu133plus2cdf")
setQCEnvironment(cleancdfname("HG-U133_Plus_2"))
|
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