A Bacterial Individual-Based Virtual Bioreactor to Test Handling Protocols in a Netlogo Platform

Abstract The choice of a basic modeling approach, either population-level or individual-based (IbM), is an important decision to be addressed according to the problem at hand. We present an IbM that simulates the dynamics of a bacterial bioreactor under different handling protocols. The main objective is to provide a simulator that will be easily understood, adjusted and used by non-experts. The model has been designed on the same basis as the IbM simulator INDISIM, and it is described using the ODD protocol. It has been implemented in NetLogo, so that it can be easily shared among the scientific community.