Compositional Term Submission Tool: Difference between revisions

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(aka [[TermGenie]])
Project lead: Chris
Project lead: Chris


Coordinates with: ontology-editors
Coordinates with: ontology-editors


An increasing number of terms coming in from sourceforge are automatable compositional terms - particularly regulation terms. The compositional term request system allows annotators to use a web template system to instantaneously get the term they require, provided it conforms to an existing pre-determined template. A reasoner is used to place the term automatically in the hierarchy.
== Purpose ==
 
An increasing number of terms coming in from sourceforge are automatable compositional terms - particularly regulation terms. Ontology editors waste time performing manual tasks that could be automated, and curators experience a bottleneck during annotation.
 
The compositional term request system allows annotators to use a web template system to instantaneously get the term they require, provided it conforms to an existing pre-determined template. A reasoner is used to place the term automatically in the hierarchy.
 
Documentation for the system is available here: [[TermGenie]]
 
== Groups ==
 
* [[Ontology_Development]]


== Project Dependencies ==
== Project Dependencies ==
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* works off of OBO or OWL files
* works off of OBO or OWL files
* uses OWLAPIv3
* uses OWLAPIv3
* runs in TomCat
* runs in TomCat/Jetty
* uses OWL reasoners
* uses OWL reasoners


Dependencies: [[Transition to OWL]]
Dependencies: [[Transition to OWL]]
See: [[TermGenie2]]


==== Reasoner Benchmarks ====
==== Reasoner Benchmarks ====

Latest revision as of 17:27, 14 June 2011

(aka TermGenie)

Project lead: Chris

Coordinates with: ontology-editors

Purpose

An increasing number of terms coming in from sourceforge are automatable compositional terms - particularly regulation terms. Ontology editors waste time performing manual tasks that could be automated, and curators experience a bottleneck during annotation.

The compositional term request system allows annotators to use a web template system to instantaneously get the term they require, provided it conforms to an existing pre-determined template. A reasoner is used to place the term automatically in the hierarchy.

Documentation for the system is available here: TermGenie

Groups

Project Dependencies


Status

#v1 is available to curators, currently on regulation requests are live


Deliverables

v1

v1 is obo-format dependent, uses a custom reasoner, and relies on various ad-hoc scripts

v1 report

A report on the v1 implementation is available:

v2

v2 will be a port of #v1

  • implemented in Java
  • works off of OBO or OWL files
  • uses OWLAPIv3
  • runs in TomCat/Jetty
  • uses OWL reasoners

Dependencies: Transition to OWL

See: TermGenie2

Reasoner Benchmarks

Need to test various OWL reasoners, simulate evolution of GO

Feasibility Study

Determine feasibility of java version