Normalize Affymetrix Probe Level Data - methods
Method for normalizing Affymetrix Probe Level Data
normalize.methods(object) bgcorrect.methods() upDate.bgcorrect.methods(x) pmcorrect.methods() upDate.pmcorrect.methods(x)
object |
An |
x |
A character vector that will replace the existing one. |
Other methodologies can be used by specifying them with the
method argument. For example to use the invariant set
methodology described by Li and Wong (2001) one would type:
normalize(object, method="invariantset").
Further arguments passed by ..., apart from method, are
passed along to the function responsible for the methodology defined by
the method argument.
A character vector of nicknames for the methodologies available
is returned by normalize.methods(object)), where object
is an AffyBatch, or simply by
typing normalize.AffyBatch.methods. If the nickname of a method
is called "loess", the help page for that specific methodology can
be accessed by typing ?normalize.loess.
For more on the normalization methodologies currently implemented please refer to the vignette ‘Custom Processing Methods’.
To add your own normalization procedures please refer to the customMethods vignette.
The functions: bgcorrect.methods, pmcorrect.methods,
provide access to internal vectors listing the corresponding capabilities.
if (require(affydata)) {
data(Dilution)
normalize.methods(Dilution)
generateExprSet.methods()
bgcorrect.methods()
pmcorrect.methods()
}Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.