On Sep 21, 2011, at 11:08 AM, Nico902 wrote:
Hi all,
I am using the package ChIPpeakAnno, and I have a problem with the
function
getAllPeakSequence. This is related to object oriented programming I
think,
I have the following message:
peaksWithSequences <- getAllPeakSequence(peakList, upstream = 100,
downstream = 100, genome = Hsapiens)
Error in validObject(.Object) :
invalid class "GRanges" object: superclass "Sequence" not defined
in the
environment of the object's class
Is the error coming from my configuration or from the code? I do not
know
many things about OOP in R.
I haven't ever seen that package mentioned on r-help befor, so it is
probably a BioC package. Bioconductor which has its own mailing list.
There are a small number of persons who are bicultural with ordinary-R
and BioC, but they generally suggest to posters to use the BioC list.
(I don't know if it has a Nabble interface. I'm guessing it does not.)
--
David Winsemius, MD
West Hartford, CT
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