Paper accepted at SWAT4LS

Our paper entitled “OPPL-Galaxy: Enhancing ontology exploitation in Galaxy with OPPL” has been accepted at SWAT4LS (First talk!). I will also help Simon with the Populous-OPPL tutorial.

Ontology Pre Processor Language for Galaxy

I have just released the first version of OPPL Galaxy, a wrapper of OPPL for the Galaxy platform. OPPL is an scripting language for manipulating ontologies; Galaxy is a platform for executing Bioinformatics workflows. Since ontologies are an important part of data analysis in Bioinformatics, it made sense to adapt OPPL to Galaxy. Plus it was really easy

You can find it in the Galaxy Tool Shed, under Ontology Manipulation.

OPPL Galaxy is built on top of OPPL API, OWL API and Pellet. Thanks to all of them!

OPPL: Best paper award EKAW 2010

I’m glad my former colleagues have obtained the best paper award in EKAW 2010 with the paper “Enriching the Gene Ontology via the Dissection of Labels using the Ontology Pre-Processor Language“. I was invited to participate in the paper but I decided that finishing my PhD was more important, so I kind of regret it now 

In any case, I’m really happy about OPPL, an scripting language I “invented” to work with OWL ontologies during my PhD, since it is very rare for PhD prototypes to go on into “production” or to be continued by others. OPPL improves thanks to Luigi Iannone, who maintains OPPL 2, and I have been told that the user base is steadily growing, so I can’t ask for more!