[BioC] basic question regarding biomaRt

Elizabeth Purdom epurdom at stat.berkeley.edu
Fri Jan 9 21:28:02 CET 2009

Hi Rhoda,
Thanks very much for your kind offer, but I guess my point is that I 
would like an official reference so that I don't have to ask, but can 
just look them up. Particularly when the names change. Or find out 
what's the difference between things like 
'structure_transcript_stable_id' and 'ensembl_transcript_id', or what 
are the 'structure_' attributes versus 'sequence_' and when can I mix 
and match, etc. I'm guessing this should be documented in either Ensembl 
or biomart webpages, but I'm not sure which or where. I would ask on 
those pages, but I was not sure if any of it is specific to biomaRt.

Rhoda Kinsella wrote:
> Hi Elizabeth,
> Can you provide me with some examples of the attributes that you 
> frequently use and I can try to define them for you?
> Kind regards,
> Rhoda
> On 9 Jan 2009, at 00:41, Elizabeth Purdom wrote:
>> Hello,
>> This is an extremely basic question regarding biomaRt. Where can I 
>> find careful descriptions of what the attributes mean? I've tried all 
>> kinds of searches, but I don't think I'm hitting on the right term. 
>> For example, I'm accessing ensembl and I've never understood the 
>> difference between some of the attributes I frequently.
>> Thanks,
>> Elizabeth
>> _______________________________________________
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>> Search the archives: 
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> Rhoda Kinsella Ph.D.
> Ensembl Bioinformatician,
> European Bioinformatics Institute (EMBL-EBI),
> Wellcome Trust Genome Campus,
> Hinxton
> Cambridge CB10 1SD,
> UK.

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