| affyParaIntern {affyPara} | R Documentation |
Internal functions for the affyPara package.
initAffyBatchSF(object, object.type) getAffyBatchSF() getIntensitySF(rows, refindexname) getCompIntensitySF(rows) getCompIntensityMatrixSF(rows, drop=FALSE) getFUNAffyBatchSF(FUN) createDirSF(to, showWarnings = TRUE, recursive = TRUE) writeLinesSF(data, fileName) listFilesSF(path, full.names=TRUE) ReadHeader(object) file.name(file, fsep = .Platform$file.sep) getObjectType(object) checkPartSize(object, number.parts)
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. |
object.type |
Declaration for the type of the argument object: "AffyBatch", "CELfileVec", "partCELfileList" |
rows |
Number of rows which have to be changed. |
refindexname |
The name of the array used as a reference. |
drop |
A logical value. If TRUE the dimensions of an array which have only one level will be deleted. |
FUN |
A function generating a value from a an AffyBatch. e.g. dim |
to |
A character vector, that defines the path and name of the new directory. |
showWarnings |
A logical value; should the warnings on failure be shown? |
recursive |
A logical values; should elements of the path other than the last be created? If TRUE, like Unix's mkdir -p. |
data |
A character vector, containing the data for the file. |
fileName |
A character string with the file name. |
path |
A character vector with the full directory. |
full.names |
A logical value. If TRUE, the directory path is prepended to the file names. If FALSE, only the file names are returned. |
file |
A character vector of file names with prepended directory path. |
fsep |
A character string, giving the file separator used on your platform. |
number.parts |
Number of nodes in the computer cluster. |
Internal functions for the affyPara package. The functions have to be used in a cluster function (e.g. clusterApply) from the SNOW package.
initAffyBatchSFgetAffyBatchSFgetIntensitySFgetCompIntensitySFgetCompIntensityMatrixSFgetFUNAffyBatchSFcreateDirSFwriteLinesSFlistFilesSFReadHeaderfile.namecharacter with complete file path (directory path and filename).getObjectTypecheckPartSizeMarkus Schmidberger schmidb@ibe.med.uni-muenchen.de, Ulrich Mansmann mansmann@ibe.med.uni-muenchen.de