[MOBY-l] [Fwd: [Hackathon] OBO and OWL formats (fwd)]

[Mark Wilkinson]

-----Forwarded Message-----
> From: Chris Mungall <cjm at fruitfly.org>
> To: Mark Wilkinson <markw at illuminae.com>
> Subject: OBO and OWL formats

> As one of people responsible for the OBO format I just wanted to let you
> know that this format was designed to be both a lightweight format for
> simple DAG-style ontologies (which presently covers all the ontologies
> within OBO) as well as an extensible format capable of handling the full
> semantics of OWL.
> 
> Although we haven't fully tried yet, it should be possible to represent
> any OWL construct in OBO (we just haven't fully documented how to do this
> yet). We care specifically about intersectionOf (for making complete vs
> partial definitions) - there should be support for this in DAG Edit soon.
> 
> The go-perl library from www.godatabase.org/dev has a converter for going
> GO/OBO format to OWL and a (currently very lossy) converter for the
> reverse. This should also be built into DAG Edit sometime soon.
> 
> With regards to reasoners, I've found the combination of protege plus OWL
> plug in plus racer to also work well.
> 
> It seems that OBO format would be a good choice for MOBY since it is
> always possible to treat OBO format as just a simple DAG ontology (just
> ignore the pesky stuff in the {}s) yet at the same time you can have
> complex enough definitions to warrant reasoning over.
> 
> Cheers
> Chris