Development of a software architecture for bioprocess modeling

Increasing the productivity of a biotechnological process becomes feasible through the development of Process Systems Engineering tools, which integrate experimental data with mathematical modeling. This work aims to develop a software architecture for modeling bioprocesses that is accessible to a multidisciplinary group. To achieve this aim, the software must be thoroughly designed based on an ontology that describes bioprocesses that can be apprehended by researchers from different fields. The ontological representation is carried out using Unified Modeling Language diagrams, whose use is demonstrated by a parameter estimation case study. It is concluded that good software development practices can be provided through the proposed architecture, since it guides simulations and parameter estimations of biotechnological processes in a structured way. • Ontological representation of bioprocesses using Unified Modeling Language diagrams. • Code developed in a generic way for (re)use by different bioprocess users. • Code implementation in open-source languages Julia and JuMP.