Temporo-spatial model construction using the MML and software framework.

Abstract

Development of complex temporo-spatial biological computational models can be a time consuming and arduous task. These models may contain hundreds of differential equations as well as realistic geometries that may require considerable investment in time to ensure that all model components are correctly implemented and error free. To tackle this problem, the Modeling Markup Languages (MML) and software framework is a modular XML/HDF5-based specification and toolkits that aims to simplify this process. The main goal of this framework is to encourage reusability, sharing and storage. To achieve this, the MML framework utilizes the CellML specification and repository, which comprises an extensive range of curated models available for use. The MML framework is an open-source project available at http://mml.gsbme.unsw.edu.au.