When citing BioDynaMo, please use this reference:

Lukas Breitwieser et al. BioDynaMo: a modular platform for high-performance agent-based simulation. In: Bioinformatics, 2021. DOI: 10.1093/bioinformatics/btab649.

We recommend specifying the exact BioDynaMo version used in the methods section. For example:

We use BioDynaMo v1.01.115-e1088d4a (Breitwieser el al., 2021) for all simulations in this article.

The version can be obtained by executing biodynamo --version and can be interpreted as follows: vMAJOR.MINOR.PATCH-SHA SHA is the git commit hash that can be used to check out the exact BioDynaMo version in our git repository with git checkout SHA.