OntoTrek

OntoTrek visualizes application ontologies in three-dimensional space to represent ontology class hierarchies and expose term origins across imported ontologies.


Key Features:

  • 3D Visualization: Represents ontology class hierarchies in a three-dimensional environment that leverages human stereoscopic vision and spatial awareness to improve perception of hierarchical structure.
  • Interactive Exploration: Enables navigation of ontology space with the ability to focus specific terms in the foreground while maintaining contextual relationships within the broader structure.
  • Term Origin Identification: Visually codes the origin of ontology terms to trace imported terms back to their source ontologies and reveal inter-ontology reuse.

Scientific Applications:

  • Educational Purposes: Facilitate understanding of ontology term hierarchies and relationships for students and researchers.
  • Software Development: Support developers integrating ontologies into applications by mapping term relationships and dependencies.
  • Curation Efforts: Aid curation teams in managing and updating ontology resources by visualizing the impact of changes within the interconnected network.
  • Funding and Project Planning: Inform assessment of the scope and integration of ontological resources to guide resource allocation and development priorities.

Methodology:

Uses a three-dimensional visualization approach to represent ontology class hierarchies and visually codes term origins within 3D space, leveraging human stereoscopic vision and spatial awareness.

Topics

Details

License:
GPL-3.0
Cost:
Free of charge
Tool Type:
web application
Operating Systems:
Mac, Linux, Windows
Programming Languages:
JavaScript
Added:
2/23/2024
Last Updated:
11/24/2024

Operations

Data Inputs & Outputs

Named-entity and concept recognition

Publications

Dooley D, Nguyen MH, Hsiao WWL. OntoTrek: 3D visualization of application ontology class hierarchies. PLOS ONE. 2023;18(6):e0286728. doi:10.1371/journal.pone.0286728. PMID:37267413. PMCID:PMC10237395.

PMID: 37267413
Funding: - Genome Canada: 286GET - Agricultural Research Service: 58-8040-8-014-F - Natural Sciences and Engineering Research Council of Canada: CGS-M

Documentation

Links