We found a match
Your institution may have rights to this item. Sign in to continue.
- Title
Ontology Development Kit: a toolkit for building, maintaining and standardizing biomedical ontologies.
- Authors
Matentzoglu, Nicolas; Goutte-Gattat, Damien; Tan, Shawn Zheng Kai; Balhoff, James P; Carbon, Seth; Caron, Anita R; Duncan, William D; Flack, Joe E; Haendel, Melissa; Harris, Nomi L; Hogan, William R; Hoyt, Charles Tapley; Jackson, Rebecca C; Kim, HyeongSik; Kir, Huseyin; Larralde, Martin; McMurry, Julie A; Overton, James A; Peters, Bjoern; Pilgrim, Clare
- Abstract
Similar to managing software packages, managing the ontology life cycle involves multiple complex workflows such as preparing releases, continuous quality control checking and dependency management. To manage these processes, a diverse set of tools is required, from command-line utilities to powerful ontology-engineering environmentsr. Particularly in the biomedical domain, which has developed a set of highly diverse yet inter-dependent ontologies, standardizing release practices and metadata and establishing shared quality standards are crucial to enable interoperability. The Ontology Development Kit (ODK) provides a set of standardized, customizable and automatically executable workflows, and packages all required tooling in a single Docker image. In this paper, we provide an overview of how the ODK works, show how it is used in practice and describe how we envision it driving standardization efforts in our community. Database URL : https://github.com/INCATools/ontology-development-kit
- Subjects
ONTOLOGIES (Information retrieval); ONTOLOGY; QUALITY control; INTEGRATED software; COMMUNITIES; QUALITY standards
- Publication
Database: The Journal of Biological Databases & Curation, 2022, Vol 2022, p1
- ISSN
1758-0463
- Publication type
Article
- DOI
10.1093/database/baac087