libOmexMeta: Enabling semantic annotation of models to support FAIR principles

Bioinformatics. 2021 Jun 16;btab445. doi: 10.1093/bioinformatics/btab445. Online ahead of print.

Abstract

Summary: As the number and complexity of biosimulation models grows, so do demands for tools that can help users better understand models and make those models more findable, shareable and reproducible. Consistent model annotation is a step toward these goals. Both models and tools are written in a variety of different languages; thus, the community has recognized the need for standard, language-independent methods for annotation. Based on the Computational Modeling in Biology Network (COMBINE) community consensus, we introduce an open-source, cross-platform software library for semantic annotation of models.

Availability: libOmexMeta is freely available at https://github.com/sys-bio/libOmexMeta under the Apache License 2.0. A live demonstration is at github.com/sys-bio/pyomexmeta-binder-notebook.

Supplementary information: Supplementary data are available at Bioinformatics online.