[Open-bio-l] Best practice for modelling data in GFF

[Giovanni Marco Dall'Olio]

Hi Dan,
why don't you ask this here:
- http://biostar.stackexchange.com/questions

this mailing list is just to discuss topics related to the OpenBio
projects, like BioPerl, BioPython, etc..
You will find more people in biostars.


On Fri, May 28, 2010 at 6:29 PM, Dan Bolser <dan.bolser at gmail.com> wrote:
> Hi guys,
>
> Not sure if this is the right forum, but I just thought I'd ask...
>
> Where can I find information on 'best practices' for modelling
> biological data in GFF?
>
> For example, I'd like to model paired-end sequence alignments in GFF.
> One suggestion was to use match/match_part to link each end into a
> pair. Another option is to use 'read_pair' with 'contig' for the
> parent feature...
>
> Should I just be using SAM/BAM?
>
> Seems a shame not to have a standard way to do this in GFF...
>
>
> Cheers,
> Dan.
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> Open-Bio-l at lists.open-bio.org
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>



-- 
Giovanni Dall'Olio, phd student
Department of Biologia Evolutiva at CEXS-UPF (Barcelona, Spain)

My blog on bioinformatics: http://bioinfoblog.it