[Gmod-gbrowse] [Gmod-help] Re: [Gmod-schema] Error loading GFF3 file into chado

[Chris Fields]

Yikes, another GFF2 variant?

chris

On Aug 14, 2009, at 2:50 PM, Jason Stajich wrote:

> I also have these script jg_gff2gff3.pl in gff_tools of http://github.com/hyphaltip/genome-scripts/tree/master
> and
> gff3_to_JGIgff.pl for converting back into JGI gff from GFF3.
>
> -jason
>
> On Aug 14, 2009, at 11:01 AM, Don Gilbert wrote:
>
>>
>>> Has anyone out there written a JGI GFF2 to GFF3 parser
>>
>> I've written both ways: jgi to gff3, and gff3 to jgi-gff (which is a
>> variant of gff2).
>> Find here
>> http://wfleabase.org/release1/current_release/supplement/jgi_gff/
>> as jgi2gff.pl  (and dpulex_gff2jgi.pl  for the other way)
>>
>> This script will want some revision for your data, and the variant
>> of JGI's gff
>> I worked with may differ from yours.  Look at the sample at the top
>> of the
>> script to see if it matches yours.
>>
>> - Don
>>
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>
> --
> Jason Stajich
> jason.stajich at gmail.com
> jason at bioperl.org
>
>
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