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.
initAffyBatchSF
getAffyBatchSF
getIntensitySF
getCompIntensitySF
getCompIntensityMatrixSF
getFUNAffyBatchSF
createDirSF
writeLinesSF
listFilesSF
ReadHeader
file.name
character
with complete file path (directory path and filename).getObjectType
checkPartSize
Markus Schmidberger schmidb@ibe.med.uni-muenchen.de, Ulrich Mansmann mansmann@ibe.med.uni-muenchen.de