[Bioc-devel] annotation package for Affymetrix Hum6000 array
lgautier at altern.org writes:
Since we are about Affymetrix chips and data, apparently there is a quirk with the example data in 'affydata' and the corresponding probe sequence package (the probe sets in the AffyBatch does not seem to match the probe sequences). I am not sure this is a big deal, but it might be handy to know for the people having code dealing with Affymetrix probe sequence and having examples for it (for example, it makes some of example in 'affypdnn' examples behave erratically).
Can you give a bit more detail or an example?
Sorry for the delay. I get a zillion things to do those days. When running the example for 'find.params.pdnn' - the parameters Ns are strangely negative (while they are positive with "real" data. - if the parameter give.warnings is set to TRUE, there are a "apparently" problems catched by the function (I say "apparently", since the routine itself could be catching things that are not problems. Laurent
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