Question: Affymetrix SDK Bioconductor package?
13.9 years ago by
Kasper Daniel Hansen • 630
Kasper Daniel Hansen • 630 wrote:
Is there really no-one who thinks it is a good idea to integrate the Affymetrix SDK for reading various file formats, into Bioconductor? Kasper On Sat, May 21, 2005 at 10:58:19AM -0700, James Bullard wrote: > > Hi all, we have been working for the last month or so on integrating the > Affymetrix parsing SDK 2.0 into an R package. We began because we had a > CDF file which would not parse with the existing libraries in > Bioconductor (the problem turned out to be in the CDF file itself). In > any case, we have spent a good amount of time on providing an interface > to this package in R, specifically duplicating the interfaces which are > currently available in Bioconductor to the CDF, CEL, CHP, BPMAP, and BAR > files (where relevant). One of the nice things about the library is that > binary formats are also accepted so the same interface can parse both > text and binary transparently. Also, it should be much easier to absorb > new library changes when Affymetrix releases new SDKs and file formats. > > The library still needs some work, but before I spend a *lot* more time > on it I wanted to know 1.) if people thought this would be good thing to > have and 2.) if someone was already working on integrating these libraries. > > We are hopeful that people will think this is a good idea - we cannot > see any reason why this would not be a good addition to Bioconductor, > and would very much like to finish the work with the blessing of the > BioC community. > > Thanks, jim > > -- > James Bullard > firstname.lastname@example.org > 760.267.0986 > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor -- Kasper Daniel Hansen, Research Assistant Department of Biostatistics, University of Copenhagen
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