[R] chippeakanno package: "getAllPeakSequence" problem
mtmorgan at fhcrc.org
Wed Sep 21 17:20:29 CEST 2011
On 09/21/2011 08:08 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.
Please ask questions about this Bioconductor package on the Bioconductor
Likely your packages are not at a consistent version. Follow these
to update your packages.
> View this message in context: http://r.789695.n4.nabble.com/chippeakanno-package-getAllPeakSequence-problem-tp3830284p3830284.html
> Sent from the R help mailing list archive at Nabble.com.
> R-help at r-project.org mailing list
> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109
Telephone: 206 667-2793
More information about the R-help