In this one-day tutorial, we will give an overview of current standards and standards-compliant tools for modeling and simulation in biology. The tutorial begins with an introduction to the COMBINE initiative, including the core standards (e.g., CellML, SBML, SED-ML and SBGN), and tools implementing these standards. We will also discuss current trends in model reproducibility and model management. This will be followed by hands-on exercises. We introduce you to a variety of mostly web-based software tools to create, visualize, simulate and modify simulation models. You will work through two specific workflows (Creating your own mathematical model, Reusing existing models from open repositories) using several different modeling and analysis tools and online resources. At the end of the hands-on sessions, you will have created a standards-compliant, semantically annotated and reproducible simulation study. Finally, we will give an outlook of future COMBINE developments, discuss the issues observed throughout the tutorial, hold open discussion and answer any remaining questions.
