[ensembl-dev] Getting variation consequence predictions without perl

[LAW Andrew]

<shameless plug>
We have just written a new skeleton API to the Ensembl database. Jared - I was unaware of yours. Sorry.

We have written it using iBatis/myBatis which allows us to separate out the model from the database representation and to evolve the mappings one to the other with time in a reasonably efficient manner.

I will be at Genome Informatics from Wednesday with a poster and example code if anyone is interested in picking this up with us.

The code is on sourceforge (jensembl.sf.net)

</shameless plug>

On 14 Sep 2010, at 12:04, Jared Nedzel wrote:

> We wrote a Java application that reads the Ensembl database directly, 
> using Hibernate.  The database schema has excellent naming conventions, 
> so it is reasonably easy to navigate.  Unfortunately, the schema itself 
> has changed significantly over time, so this results in a large 
> maintenance burden.
> 
> 
> On 9/14/10 6:22 AM, Asraniel wrote:
>> i'm developing java app and i access the ensembl data trough biomart. Works
>> great, thanks for that api.
>> 
>> Now, is there a way to get the variantion consequence prediction without using
>> perl? i didn't find a way trough biomart.
>> 
>> Thank you
>> 
>> Beat Wolf
>> 
> 
> 
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Later,

Andy
--------
Yada, yada, yada...

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