pdInfo2Cdf: Generates an Affymetrix CDF file from a Platform Design (PD) package and a auxiliary CEL file for the same chip type

Description

Generates an Affymetrix CDF file from a Platform Design (PD) package and a auxiliary CEL file for the same chip type. Platform Design (PD) packages are also known as "pdInfo" packages.

Disclaimer: This is a user-contributed function.

Instead of using this method, we recommend to use writeCdf() for the AffyGenePDInfo class.

Usage

pdInfo2Cdf(pdpkg, celfile, overwrite=FALSE, verbose=TRUE, ...)

Value

Returns (invisibly) the pathname to CDF written. The CDF filename is generated from the name of the PD package.

Arguments

pdpkg: A character string for an existing PD package.
celfile: The pathname to an auxiliary CEL for the same chip type.
overwrite: If TRUE, an existing CDF is overwritten, otherwise an exception is thrown.
verbose: A logical or Verbose.
...: Not used.

Limitations

The information available in the PD package is limited and does not contain all information needed to populate a CDF file. In order to workaround these limitations, certain CDF entries are set to predefined/hardwired values. The 'pbase' and 'tbase' entries of the generated CDF file is hardwired to "T" and "A", respectively. Likewise, the 'groupdirection' entry is hardwired to "sense".

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