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

[Jason Stajich]

It's covered in the GFF3 spec as match_part if that helps.
http://song.sourceforge.net/gff3.shtml

Dan Bolser wrote, On 5/28/10 9:29 AM:
> 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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