[BioC] GO with mu11ksuba(b)

[Steffen Durinck]

Hi,

The biomaRt package (see developmental packages) provides annotation for 
mu11ksuba. 

In biomaRt your query would be:

mart<-martConnect()
res<-getGO(id=probeids[1:100], array="mu11ksuba",mart=mart)

best,
Steffen


Seth Falcon wrote:

>Mayte Suarez-Farinas <mayte at babel.rockefeller.edu> writes:
>
>  
>
>>Hi,
>>I was trying to use the GO package with the mouse chips mu11ksuba and 
>>mu11ksubb. The following two functions:
>>
>>     res<-getGO(probesids[1:100],'mu11ksuba')
>>     res<-unique(lookUp('GO:0006338','mu11ksuba',"GO2ALLPROBES"))
>>
>>gave the same error:
>>
>>     Error in package_version(vers) : invalid version spec
>>
>>But it works just fine with hgu95av2,
>>
>>     res<-unique(lookUp('GO:0006338','hgu95av2',"GO2ALLPROBES"))
>>
>>I reinstalled all BioC developmental package and the cdf and probe 
>>packages for mu11ksuba(b) chips again and I still got the same error.
>>
>>
>>Any hint ??
>>    
>>
>
>I think we don't have an annotation data package for the mu11ksuba
>chip and that is what the error message is (trying) to tell you.
>
>+ seth
>
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