[Bioperl-l] experimental IO module for exporting OWL from GFF

[Chris Mungall]

I thought it made sense to put this in its own distribution

	http://github.com/cmungall/bioperl-owl

I may push it to CPAN if there's interest

On Jun 25, 2009, at 6:35 PM, Chris Fields wrote:

> I agree.  Just to note, FeatureIO (even though it's in core) will be  
> operated on at some future point to be simplified (and likely will  
> move away from Bio::SF::Annotated).
>
> chris
>
> On Jun 25, 2009, at 8:08 PM, Mark A. Jensen wrote:
>
>> This sounds very Dev to me. Also cool.
>> MAJ
>> ----- Original Message ----- From: "Chris Mungall" <cjm at berkeleybop.org 
>> >
>> To: "BioPerl List" <bioperl-l at lists.open-bio.org>
>> Sent: Thursday, June 25, 2009 8:32 PM
>> Subject: [Bioperl-l] experimental IO module for exporting OWL from  
>> GFF
>>
>>
>>>
>>> I've written a module Bio::FeatureIO::seqont_owl, which generates   
>>> Sequence Ontology compliant RDF/OWL. This will allow for example   
>>> loading of GFF into triplestores and inference using OWL reasoners.
>>>
>>> - It's experimental, fairly incomplete, and subject to change
>>> - Relies on an experimental extension of SO
>>> - Probably of interest to a minority of bp users
>>> - It's not yet fully documented (but there will be a paper)
>>> - It doesn't introduce any additional dependencies (all done via   
>>> XML::Writer, which is already a dependency)
>>> - Doesn't otherwise impinge on existing code
>>>
>>> I'd like to get this under source control. Is the appropriate  
>>> place  for this:
>>>
>>> - HEAD
>>> - a branch
>>> - bioperl-dev
>>> - a separate repository

>>>
>>> ?
>>>
>>> Cheers
>>> Chris
>>>
>>>
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>>> Bioperl-l at lists.open-bio.org
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>>>
>>
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>
>