[BioC] plier error message
James W. MacDonald
jmacdon at med.umich.edu
Mon Feb 12 21:19:19 CET 2007
Karen Vranizan wrote:
> Hello. What does the following error message mean? It is a result of
> running justPlier on an affybatch set of 9 chips. I am using R 2.4.0
> and plier 1.5.1. Thank you.
It means that you installed a devel version of plier on a release
version of R. Unfortunately with evolving software like R and BioC,
mixing and matching things like that can have unintended consequences.
The usual prescription is best - use biocLite() to install packages so
you don't get mismatches.
Best,
Jim
>
>
>> plierset<-justPlier(data,normalize=T)
>
> Quantile normalizing...Done. Error in function (classes, fdef,
> mtable) : unable to find an inherited method for function
> "experimentData", for signature "AffyBatch" In addition: Warning
> message: updating phenoData argument to 'AnnotatedDataFrame'
>
>
>
> Karen Vranizan Functional Genomics Lab 261A Life Sciences Addition
> Mail Code #3200 UC Berkeley, CA 94720-3200
>
> Phone: 510-642-7520 Fax: 510-643-2685 email:
> vranizan at berkeley.edu
>
> [[alternative HTML version deleted]]
>
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--
James W. MacDonald
University of Michigan
Affymetrix and cDNA Microarray Core
1500 E Medical Center Drive
Ann Arbor MI 48109
734-647-5623
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