[Bioperl-l] GenBank ASN.1 SeqIO parser

Jason Stajich jason at bioperl.org
Thu Feb 7 17:46:41 EST 2008


ugh - why parse ASN.1? NCBI provides converter application in the  
ncbi toolkit to many formats : genbank, XML, etc.
On Feb 7, 2008, at 1:48 PM, Chris Fields wrote:

> No.  The only ASN.1 parser is entrezgene.  You could probably try  
> building one using the same ASN.1 parser that SeqIO::entrezgene  
> uses (Bio::ASN1::EntrezGene); it includes a parser for sequences:
>
> http://search.cpan.org/~mingyiliu/Bio-ASN1-EntrezGene-1.091/lib/Bio/ 
> ASN1/Sequence.pm
>
> chris
>
> On Feb 7, 2008, at 3:24 PM, Ryan Golhar wrote:
>
>> Is there a SeqIO parser module for GenBank ASN.1 format?  I  
>> thought it would have been genbank or entrezgene, but neither of  
>> them work.
>>
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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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