bgCorrectPara {affyPara} | R Documentation |
Parallelized functions for background correction of probe intensities.
bgCorrectPara(cluster, object, phenoData = new("AnnotatedDataFrame"), method, verbose = FALSE) bgCorrectParaSF(method)
cluster |
A cluster object obtained from the function makeCluster in the SNOW package. |
object |
An object of class AffyBatch OR a character vector with the names of CEL files OR a (partitioned) list of character vectors with CEL file names. |
phenoData |
An AnnotatedDataFrame object |
method |
A character that defines what background correction method will be used. Available methods are given by bg.correct.methods . The name of the method to apply must be double-quoted. |
verbose |
A logical value. If TRUE it writes out some messages. |
bgCorrectPara
is the parallelized function for background correction of probe intensities. For serial function an more details see bg.correct.
For using this function a computer cluster using the snow
package has to be started.
bgCorrectParaSF
is a internal function which will be executed at slaves.
bgCorrectParaSF
bg.correct
at slaves.
An AffyBatch
for which the intensities have been background adjusted. For some methods (RMA), only PMs are corrected and the MMs remain the same.
Markus Schmidberger schmidb@ibe.med.uni-muenchen.de, Ulrich Mansmann mansmann@ibe.med.uni-muenchen.de
## Not run: library(affyPara) if (require(affydata)) { data(Dilution) c1 <- makeCluster(3) ##bgc will be the bg corrected version of Dilution bgc <- bgCorrectPara(c1, Dilution, method="rma", verbose=TRUE) stopCluster(c1) } ## End(Not run)