One of the awesome things about my last job is that I got to open source my work. More companies should do this! Among the benefits of open-sourcing work is it presents evidence of previous work and experience for the employee and for the employer it means projects get exposure and contributions from outside.
My main project is a SOP/experiment definition management system. It was written in PHP using the CodeIgniter framework with a little Zend Framework and the data is stored in a MySQL database. I'm close to finishing the paper for the project. Check out the code in the meantime: https://github.com/mpi2/impress
For the main project I created an OWL Ontology using a combination of Protégé and the Java OWLAPI to generate ontology classes and individuals from the items in the database. For those of you who want to figure out how to use the OWLAPI to build ontologies I am sure the code will help you figure it out: https://github.com/mpi2/impress_owl
Also, I'd like to point out another project I wrote which is mappings of core XML datatypes into PHP classes (with validation checking): https://github.com/mpi2/xmldatatype.
And a reminder to a previously mentioned project, PhpObo, which is a OBO file format parser and builder written in PHP: https://github.com/mpi2/PhpObo
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