[BioC] Yeast and LocuslinkIDs

[Sean Davis]

Christina,

Did you load your data using affy?  Someone with more affy experience 
might chime in here, but does the affy package pull anything besides 
the cdf package automatically?  In any case, there is an annotation 
package available at 
http://www.bioconductor.org/data/metaData/yg98_1.6.8.tar.gz

You can download and install it and then use the tools in the 
'annotate' package to query for locusids.

Hope this helps,
Sean

On Jan 21, 2005, at 4:31 PM, Christina Kendziorski wrote:

>
>
> Affy yeast genome s98
>
> Christina
>
> Christina Kendziorski
> Assistant Professor
> Department of Biostatistics and Medical Informatics
> University of Wisconsin - Madison
> Medical Sciences Center (6729)
> 1300 University Avenue
> Madison, Wisconsin 53706
>
> Phone: (608) 262-3146
> Fax: (608) 265-7916
>
>
> On Fri, 21 Jan 2005, Sean Davis wrote:
>
>> What chip are you using?
>>
>> Sean
>>
>> On Jan 21, 2005, at 4:08 PM, Christina Kendziorski wrote:
>>
>>>
>>>
>>>
>>> Hi all,
>>>
>>> We are trying to use GOHyperG on yeast. The problem seems to be that
>>> there is no yeast2locuslinkid function, and GOHyperG expects
>>> locuslink ids. I cannot seem to find an easy way to go from yeast
>>> probe set ids to locuslink ids.
>>>
>>> Is there a way ? We are currently trying to work something out using
>>> GOALLLOCUSID.
>>>
>>> Thanks,
>>>
>>> Christina
>>>
>>> Christina Kendziorski
>>> Assistant Professor
>>> Department of Biostatistics and Medical Informatics
>>> University of Wisconsin - Madison
>>> Medical Sciences Center (6729)
>>> 1300 University Avenue
>>> Madison, Wisconsin 53706
>>>
>>> Phone: (608) 262-3146
>>> Fax: (608) 265-7916
>>>
>>> _______________________________________________
>>> Bioconductor mailing list
>>> Bioconductor at stat.math.ethz.ch
>>> https://stat.ethz.ch/mailman/listinfo/bioconductor
>>
>>