Welcome to the owltools wiki!

The API-Javadoc can be found here: http://owlcollab.github.io/owltools/api/

• Introduction
• Features
• Installing OWLTools
• Command line examples
  • Common Ancestors
  • Using OPPL
• OWL Queries
• OWLTools Web Services
  • Perl client
• Misc
  • Rhino (javascript) client This has been superseded by https://github.com/cmungall/owl.js
  • Ontology Visualization
  • Import Chain Mirroring
• Applications using OWLTools
• Mailing list and help

• Introduction to Oort
• Downloads and installation
• GUI Documentation
• Command Line Usage
• Configuration Options
• Working with Multiple Ontologies
• Javadoc
• Mailing list and help
• Tips
• Release pipeline tips
• Continuous integration
• Oort with OE/Protege
• Merging ext onts back in
• Advanced
• Oort for gene associations
• Import chain docs
• Uberon documentation system
• Generating diffs