  Motivation: Agent-based modeling is an indispensable tool for studying
complex biological systems. However, existing simulators do not always take
full advantage of modern hardware and often have a field-specific software
design.
  Results: We present a novel simulation platform called BioDynaMo that
alleviates both of these problems. BioDynaMo features a general-purpose and
high-performance simulation engine. We demonstrate that BioDynaMo can be used
to simulate use cases in: neuroscience, oncology, and epidemiology. For each
use case we validate our findings with experimental data or an analytical
solution. Our performance results show that BioDynaMo performs up to three
orders of magnitude faster than the state-of-the-art baseline. This improvement
makes it feasible to simulate each use case with one billion agents on a single
server, showcasing the potential BioDynaMo has for computational biology
research.
  Availability: BioDynaMo is an open-source project under the Apache 2.0
license and is available at www.biodynamo.org. Instructions to reproduce the
results are available in supplementary information.
  Contact<EMAIL_ADDRESS><EMAIL_ADDRESS><EMAIL_ADDRESS><EMAIL_ADDRESS>  Supplementary information: Available at
https://doi.org/10.5281/zenodo.4501515
