CloVarS
Clonal Variability Simulation
CloVarS, the Clonal Variability Simulation, is a cell culture simulation that generates synthetic single-cell lineage data, as normally obtained from time-lapse microscopy experiments.
CloVarS generates synthetic single-cell lineage data.
What can you do with it?
- Generate lots of single-cell data across multiple colonies and treatment conditions.
- Estimate division and death distributions from experimental data, then run in silico simulations that replicate in vitro single-cell behavior.
- Test biological hypotheses of cell fitness dynamics.
- Benchmark cell tracking algorithms.
Example of a simulation result for a single colony.
How do I run it?
CloVarS is executed through the command line. You need Python installed (version 3.8+) before running it.
Simulation parameters are controlled by settings files, which you can edit in order to produce different simulation scenarios.
Installation & source code
For more information on how to install and run CloVarS, visit the CloVarS GitHub repository .
CITATION
Faccioni, J.L., Kraemer-Mattos, F., Begnini, K.R. et al. CloVarS: a simulation of single-cell clonal variability. BMC Methods 2, 13 (2025).
Related Links
Programa de Pós-Graduação em Biologia Celular e Molecular — UFRGS
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