[BioC] Simpleaffy problems

James W. MacDonald jmacdon at med.umich.edu
Tue Sep 28 14:58:51 CEST 2010

Hi Anjan,

On 9/27/2010 4:38 PM, ANJAN PURKAYASTHA wrote:
> So, I want to run some QC on an Affy data set- data0hR.
> Shown are my commands and the errors thrown by simpleaffy:
>> library(simpleaffy)
>> data0hR.qc<- qc(data0hR)
> Error in function (classes, fdef, mtable)  :
>    unable to find an inherited method for function "annotation", for
> signature "AffyBatch"

I don't see a call to annotation() in the qc() function from simpleaffy, 
so I wonder if you are masking with another function from another package?

Will you try again with only simpleaffy loaded, and send us the output 
of sessionInfo()?



>> avbg(data0hR.qc)
> Error: object 'data0hR.qc' not found
> Error in avbg(data0hR.qc) :
>    error in evaluating the argument 'object' in selecting a method for
> function 'avbg'
> I use R on a Mac OS X 10.5.8.
> Any helpful feedback will be appreciated.
> Thanks,
> Anjan

James W. MacDonald, M.S.
Douglas Lab
University of Michigan
Department of Human Genetics
5912 Buhl
1241 E. Catherine St.
Ann Arbor MI 48109-5618
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