l: An imperative DSL to stochastically simulate biological systems

Abstract

Language-based modelling of biological systems is a growing field of research. Many proofs of concept have been published in the last decade. We propose a domain specific language, imperative in style, to step ahead of proof of concepts. Our DSL is compiled into C# and exploits the benefits of C# optimising compilers to gain in time performance of simulations. We report benchmarks of its implementation relying on a mass-action model of the MAPK cascade and a Michaelis-Menten model of the one-carbon metabolism.