Open modeling and exchange (OMEX) metadata specification version 1.0

Maxwell L Neal, John H Gennari, Dagmar Waltemath, David P Nickerson, Matthias König
2020 Journal of Integrative Bioinformatics  
A standardized approach to annotating computational biomedical models and their associated files can facilitate model reuse and reproducibility among research groups, enhance search and retrieval of models and data, and enable semantic comparisons between models. Motivated by these potential benefits and guided by consensus across the COmputational Modeling in BIology NEtwork (COMBINE) community, we have developed a specification for encoding annotations in Open Modeling and EXchange
more » ... atted archives. Distributing modeling projects within these archives is a best practice established by COMBINE, and the OMEX metadata specification presented here provides a harmonized, community-driven approach for annotating a variety of standardized model and data representation formats within an archive. The specification primarily includes technical guidelines for encoding archive metadata, so that software tools can more easily utilize and exchange it, thereby spurring broad advancements in model reuse, discovery, and semantic analyses.
doi:10.1515/jib-2020-0020 pmid:32589606 fatcat:onmkf5jptjhihjcml25fxgbrsm