[BioC] RefSeq Entries

[John Zhang]

>Hello Group, 
> How can I get RefSeq accession IDs instead of LocusLink IDs. 

If you have the devel version of data package installed, you can do:

>get("1000_at", env=hgu95av2REFSEQ)
[1] "NM_002746" "NP_002737" "NM_002746" "NP_002737"

Otherwise, you have to do 
>library(reposTools)
>install.packages2("hgu95av2", develOK = TRUE)

first.

> 
>>get("1000_at", env=hguav2LOCUSID)
>[1] 5595 
>
>Instead of one single probe, how can I get all 12,625  in RefSeq accession ID 
for hguav952.
> 
>env=hguav2REFSEQ isnt working.
> 
>Please help. 
> 
>Thank you.
> 
>
>Robert Baertsch <baertsch at soe.ucsc.edu> wrote:
>While you are at it, can you please allow people to install R without 
>being root? Our sysadmin will install only RPMs and since bioconductor 
>has no RPMS, all of the R users need to compile the source for R.
>
>It is a real pain and many long time R users are frustrated by it. What 
>do you guys have to do something special? Every other unix app in the 
>world has an RPM.
>
>RPM good.
>installation scripts bad.
>
>Get the picture.
>
>Jeff Gentry wrote:
>
>>>I've gotten this error a few times. Each time I rerun getBioC("exprs") , 
>>>it get past it and then it happens again.
>>> 
>>>
>>
>>Yes ... I've gotten a rash of these reports, have not been able to
>>personally reproduce it. Originally the first couple of people were using
>>Mac OS X, so thought it was a problem specific to that OS, but now have a
>>few people using Win32 and Unix machines. I'm a bit baffled as everyone
>>is using release side stuff, and nothing should have changed there, but
>>clearly something is not right. Will let folks know ASAP when I figure
>>something out.
>>
>>Thanks
>>-J
>> 
>>
>
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Jianhua Zhang
Department of Biostatistics
Dana-Farber Cancer Institute
44 Binney Street
Boston, MA 02115-6084