[Gmod-schema] RE: [Bioperl-l] Re: BioSQL or chado

[Chris Stoeckert]

Hi Nat,
Coming into this exchange late but just wanted to mention our plans for  
BioPerl and GUS. GUS has its own object layer but we are exploring  
BioPerl for transferring standard sequence analyses into the GUS  
tables. Arnaud Kerhornou (GeneDB) at the Sanger Institute is working on  
this.

Cheers,
Chris

On Wednesday, July 30, 2003, at 08:40  AM, Nathan ((Nat)) Goodman wrote:

> Thanks, everyone, for the helpful comments!
>
> Hilmar wrote:
>> I gave an extensive talk at BOSC03 on biosql and bioperl-db, and I can
>> email you the slides if you are interested.
>
> Yes, the slides would be great!  I'm starting to feel my way through  
> the
> code.  I gather that to make class XXX persistent, I create a
> Bio::DB::BioSQL::XXXAdapter class, yes?  Seems simple enough...  
> (famous last
> words :)
>
> I should have made my needs a bit more clear.  I want to use existing
> schemas and adapters for existing BioPerl classes.  I accept the
> responsibility to create schemas and adapters for new BioPerl (or  
> BioPerl
> wannabe) classes I write, and hope that others will do the same for  
> BioPerl
> classes they write. I expect to access the database through BioPerl  
> only
> (except for occasional admin purposes) which means that the only  
> features
> I'll ever use are ones that are visitble through BioPerl.
>
> I'm trying to hitch my wagon to the schema that has the most mature  
> BioPerl
> binding and that is likely to be most widely adopted by the community  
> of
> BioPerl developers (so that the BioPerl binding will continue to  
> improve).
>
> Thanks,
> Nat
>
>
>
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