[Bioperl-pipeline] Genewise matters

[shawnh@worf.fugu-sg.org]

Hi Bala,
great work. I will take a look at the runnables and wrappers some tmie
today in between dinners and pubs :)

we think we have a resonable design change for  the genewise stuff
filters,converters,input create etc just need to code it and see how it
goes. hopefully sometime today.


do commit your BioToEns for bioperl-genes->ensembl genes code to save me some time
I wil be reafcotring BioToEns into the converter modules.



will let u know.

cheers,

shawn

On Sat, 7 Sep 2002, Bala wrote:

> Hi Elia
> 
> Latest update on genewise:-
> 
> These things are tested and working fine......
> 
> 1.The genwise wrapper
> 2.The genewise runnable
> 
> 
> > No. The inputs will already be stored with their name (e.g. protein id) and
> > iohandler (e.g. bioperl-db->get_Seq_by_id).... and the same for contigs,
> > which will come with its get_Contig_start_end method, so you don't need to
> > worry about it, all Genewise needs to do is take the two sequences, run and
> > give results...
> 
> The genewise runnable is tested to take two sequences ,run genewise ,and
> store(Yu jin has done this) the genes,transcript and exon  properly back to
> the database.
> Its working fine.
> 
> Elia, where do I go from here?
> 
> how do we integrate ?
> 
> 
> Thanks and regards
> 
> 
> Bala
> 
> 
> 
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-- 
********************************
* Shawn Hoon
* http://www.fugu-sg.org/~shawnh
********************************