Abstracting and Generalising the Foundational Model Anatomy (FMA) Ontology

Supplementary Material

A copy of the paper submitted to the bio-ontologies meeting can be found here.

• Initial FMA in OWL
• Unprocessed skeleton segment of FMA
• Example of the Abstracted FMA subset: Example ontology generated by the Abstraction algorithm
• Example of the Expanded FMA subset: Example ontology generated by the Expansion algorithm
• Complete set of Abstracted and Expanded ontologies
• FMA Abstraction code and Abstraction jar file
• FMA Expansion code and Expansion jar file

Instructions for the Abstraction jar file:

• Run the jar file: java -jar AbstractionAlg_v1.6_xxx.jar
• Browse for the FMA subset you want to abstract and the input hierarchy with symmetries and start the Abstraction

Example usage: Use the Initial-FMA-subset.owl and the "example Input hierarchy for Abstraction.txt" to test the abstraction algorithm (Both files should be in the same classpath with the jar file). The text file should contain the hierarchy of the Symmetries that will be considered by the abstraction algorithm.

Instructions for the Expansion jar file:

• Run the jar file: java -jar ExpandAlg_v0.6_xxx.jar
• Browse for the abstracted FMA ontology and the input hierarchy with symmetries and start the Expansion

Example usage: Use the Abstracted_ontology_v1_6.owl and the "example Input hierarchy for Expansion.txt" to test the expansion algorithm (Both files should be in the same classpath with the jar file).