Re: [Gmod-schema] Bulk loading of publications and sequences

[Naama M. <nm...@co...>]

Thanks fro your reply!

What about a GenBank to gff3 file converter? Is there anything available 
from GMOD?


Scott Cain wrote:

>Hi Naama,
>
>The pub module only very lightly used right now; I don't know if FlyBase
>has loaded their pub data into chado, Dave or Pinglei?
>
>Even if they have, I imagine they are using custom scripts to load the
>data.
>
>Scott
>
>
>On Wed, 2006-07-05 at 16:16 -0400, Naama Menda wrote:
>  
>
>>Hi,
>>
>>Is there a GMOD tool for bulk loading publication data into CHADO's pub 
>>module?
>>
>>I'd also like to load data from a GenBank file into the sequence module, 
>>but I only found gmod_fasta2gff3.pl.
>>The problem is fasta files do not contain many of the fields that exist 
>>in the .gb file.
>>Is there an available script for converting  genbank format directly to 
>>gff3?
>>
>>Thanks!
>>
>>-Naama
>>
>>
>>
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