OneModel: an open-source SBML modeling tool focused on accessibility, simplicity and modularity

With the advent of the Systems Biology Markup Language (SBML), a large community of SBML-compliant tools has been created. However, these tools can only be used to their full potential by expert users with advanced programming knowledge. OneModel is an open-source text-based tool for defining SBML models in a modular and incremental way that minimizes the user's programming knowledge requirements. It is focused on accessibility, simplicity, and modularity. OneModel syntax allows the user to define models based on chemical (and pseudo-chemical) reactions, differential equations, and algebraic equations. OneModel is written in Python, and it provides two interfaces: a command-line interface for expert-users, and a graphical user interface for non-expert users. Here, we show two OneModel syntax use case scenarios for modeling an antithetic controller and then integrating it into a host-aware model, which is freely distributed with OneModel.