[Bioperl-l] SeqIO::GeneConstructionKit ??

[Jason Stajich]

I'm not really familiar with the format but in principal if you write a
SeqIO parser for GCK then it is trivial to do the conversion.  Depending
on how much information you are trying to save from the conversion - just
the sequence data or presumably the annotation data as well...  Look at
SeqIO/genbank.pm and SeqIO/embl.pm the next_seq method to see how we build
a sequence object up from the parsed data.


-jason
On Mon, 15 Sep 2003, Cook, Malcolm wrote:

> I'm looking at reforming some hunders (thousands) or GCK molecules into
> genbank (or embl) format.
>  Only option I can suss out is to uyse menu option to export
> one-at-a-time into GCC format (supported by GCK) and then translate
> using either ReadSeq or SeqIO based script.
>
> But that manual export is going to be painful.
>
> Any ideas?
>
> Cheers,
>
> Malcolm Cook
> Database Applications Manager
> Stowers Institute for Medical Research
> 1000 E 50th Street
> Kansas City, MO 64110
> tel: 816-926-4449
> fax: (816) 926-2098
>
>
>
>

--
Jason Stajich
Duke University
jason at cgt.mc.duke.edu