[Biojava-l] GFF Parsing

[Richard Holland]

Hello. BioJavaX has no GFF parser yet, but we would most certainly
welcome one. It'd have to be a from-scratch parser although you could
certainly use the BJ2 parser as reference for working out what to put
where in the object model. The idea of the BJX parsers was to make
better use of the object model than the BJ2 ones, so you might have to
move a few things to more appropriate slots.

Also, take a look on the BioJava website about our discussions for
BioJava 3 - on which work will start shortly.

Thanks for your interest!

cheers,
Richard

2008/6/4 benn <benn at mpi-cbg.de>:
> Hello,
>
>         I am investigating the user of biojava for file parsing for in-house
> apps in my organisation.  I have previously used biojava but if I am looking
> at a new implementation then I would like to use biojavax.  I have managed
> to parse a fasta file with no problems but I now need to parse gff.  I
> cannot see a parser for gff in biojavax, would I need to implement a new
> parser which works with the biojavax IOTools and rich sequence or can I use
> the parser from biojava2 in some way?
>
> Cheers,
>
> Neil
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