[Bioperl-l] Bio::SeqIO object for GenBank XML format?

Chris Fields cjfields at uiuc.edu
Tue Feb 5 20:19:16 EST 2008


Could probably base it off of the BSML parser.  Might be better to  
write up a general INSDC XML parser, which GenBank/EMBL/DDBJ all use  
now:

http://www.insdc.org/page.php?page=documents&sid=fa24a7d177ab7a687e87a85db6822c01

chris

On Feb 5, 2008, at 6:45 PM, Jason Stajich wrote:

> Then there probably isn't - the codebase Bo/SeqIO directory would  
> tell you otherwise I guess.
> Does anyone use the format and want to write one?
>
> On Feb 5, 2008, at 3:15 PM, Ryan Golhar wrote:
>
>> Is there a SeqIO module for the XML format for GenBank records?   
>> The "http://www.bioperl.org/wiki/HOWTO:SeqIO" page doesn't show one  
>> listed.
>>
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Christopher Fields
Postdoctoral Researcher
Lab of Dr. Robert Switzer
Dept of Biochemistry
University of Illinois Urbana-Champaign





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