importFromDChip.AffymetrixCelSet: Imports dChip-exported CEL files
Description
Imports dChip-exported CEL files into a directory structure recognized by this package.
ASCII CEL files are converted to binary CEL files, and for chip types
where the array data is rotated 90-degrees counter clockwise by dChip,
the data is rotated back.
As of 2007-03-28, dChip rotates data for exon, tiling, and
Mapping 500K arrays.Usage
AffymetrixCelSet$importFromDChip(path, name=NULL, tags="dChip", rootPath="probeData", rotateBack=NA, ..., skip=TRUE, verbose=FALSE)
Arguments
path
The path to all dChip-exported CEL files.
name
The name of the output data set.
If NULL, the name is inferred from the source path. tags
Tags added to the imported data set.
rootPath
The root path where to store the data set.
rotateBack
If TRUE, the dChip-rotated array data is rotated
back. If NA, this is inferred from the chip type name. ...
Additional arguments passed to byPath().
skip
If TRUE, already converted files are not re-converted. synopsis
importFromDChip.AffymetrixCelSet(static, path, name=NULL, tags="dChip", rootPath="probeData", rotateBack=NA, ..., skip=TRUE, verbose=FALSE)Details
Note that dChip stores CEL intensities as 16-bit integers in its *.dcp
files, although CEL files are capable or holding floats.
This means that you might loose precision if first import data in to
dChip and then export it data again.