[Biojava-l] Genbank ASN.1 or XML parser

[mark.schreiber at group.novartis.com]

Hello -

At the moment there are no parsers for XEMBL, GenBankXML or ASN.1, They 
could both be easily made if someone had that time. GenBankXML could 
easily draw on a SAX or DOM parser to pass events to the BioJava 
SequenceBuilders (using some kind of adapter). ASN.1 would need a more 
custom parser but because it is highly structured that shouldn't be too 
hard.

Any volunteers?

- Mark





"Gang Wu" <gwu at molbio.mgh.harvard.edu>
Sent by: biojava-l-bounces at portal.open-bio.org
06/02/2004 11:21 PM
Please respond to gwu

 
        To:     "Bio-Java" <biojava-l at biojava.org>
        cc: 
        Subject:        [Biojava-l] Genbank ASN.1 or XML parser


Hi everyone,

I just tried out the APIs for parsing Genbank format files. Though it 
works
well, I still wonder if there are APIs for parsing Genbank files in ASN.1 
or
XML formats because the Genbank format was designed for human being and 
the
ASN.1 and XML formats should be more reliable for data exchange.

Gang Wu

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