qc.read.file {simpleaffy} | R Documentation |
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. This is usually done by a call to
setQCEnvironment
; the function described here is the one
that does the actual loading of the
configuration file. See the package vignette for details of the config
file's syntax.
qc.read.file(fn)
fn |
full path and name of the file to load |
none.
Crispin J Miller
http://bioinformatics.picr.man.ac.uk/
fn <- system.file("extdata","hgu133plus2cdf.qcdef",package="simpleaffy") qc.read.file(fn) qc.get.spikes() qc.get.probes() qc.get.ratios()