[BioC] Annotation of Affymetrix hgu133plus2 chip

[John Zhang]

>This implies that one needs to use development versions of annotate, 
>GO, etc. to be "compatible"?  Just for clarification....

The release BioC packages still work for most part but you have to use the devel 
version for annotation packages that have experienced structural changes. When 
there is any change to an annotation package, users will be alerted by our NEWS 
that is broadcasted weekly through BioC mailing list.


>
>On Aug 31, 2004, at 8:17 AM, John Zhang wrote:
>
>>
>>> Jianhua can correct me, but I think they are updated quarterly, so 
>>> some
>>> of the annotation is likely to have changed.
>>
>> Now we have both the release and developmental tracks that work with 
>> the release
>> and developmental BioC packages, respectively. Only the developmental 
>> track gets
>> updated quartely. To get the devel verion you do:
>>
>>> library(reposTools)
>>> install.packages2(PkgName, develOK = TRUE)
>>
>>
>>>
>>> Sean
>>>
>>> On Aug 31, 2004, at 6:21 AM, Dipl.-Ing. Johannes Rainer wrote:
>>>
>>>> hi,
>>>> does somebody know if the annotation packages for the Affymetrix 
>>>> chips
>>>> will be
>>>> updated sometimes?
>>>> i am using the annotation package hgu133plus2 which was created in
>>>> march and i
>>>> wonder if there may be some changes, for example retired UniGene IDs 
>>>> or
>>>> something like that. I found already a probe set that is annotated to
>>>> GenBank,
>>>> but not on UniGene, although there exists a UniGene cluster with this
>>>> GenBank
>>>> ID.
>>>> thanks to all
>>>>
>>>> _______________________________________________
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>>>> https://stat.ethz.ch/mailman/listinfo/bioconductor
>>>
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>>
>> Jianhua Zhang
>> Department of Biostatistics
>> Dana-Farber Cancer Institute
>> 44 Binney Street
>> Boston, MA 02115-6084
>
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Jianhua Zhang
Department of Biostatistics
Dana-Farber Cancer Institute
44 Binney Street
Boston, MA 02115-6084