[BioC] getNetAffx function when using oligo package

[Benilton Carvalho]

thanks for reporting back to the list... b

On 22 October 2010 22:18, Jon T <jt.compbio at gmail.com> wrote:
> Thanks Jim,
>
> Benilton Carvalho suggested updating R to 2.12.0 and that worked.
>
> Jon
>
>
>
> On Fri, Oct 22, 2010 at 11:20 AM, James W. MacDonald <jmacdon at med.umich.edu>
> wrote:
>>
>> Hi Jon,
>>
>> On 10/22/2010 1:58 PM, Jon T wrote:
>>>
>>> Hi,
>>> I'm trying to preprocess Affymetrix Gene 1.0 ST array data using oligo,
>>> and
>>> it says in the vignette to use the function getNetAffx() to retrieve
>>> NetAffx
>>> biological annotation information.  When I try to run it, I get an error
>>> message saying that the function can't be found.  Is there a bioconductor
>>> package I need to install?
>>
>> Yes, you need oligo installed and loaded. You don't give your
>> sessionInfo(), so it is impossible to know if you have done the latter (or
>> the former, for that matter). But in a current release version of BioC, I
>> have this function.
>>
>> Best,
>>
>> Jim
>>
>>
>>>
>>>> featureData(genePS)<- getNetAffx(genePS, "probeset")
>>>
>>> Error: could not find function "getNetAffx"
>>>
>>> Thanks,
>>> Jon
>>>
>>>        [[alternative HTML version deleted]]
>>>
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>>
>> --
>> James W. MacDonald, M.S.
>> Biostatistician
>> Douglas Lab
>> University of Michigan
>> Department of Human Genetics
>> 5912 Buhl
>> 1241 E. Catherine St.
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>
>