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CBMOS: a GPU-enabled Python framework for the numerical study of center-based models.

Sonja MathiasAdrien CoulierAndreas Hellander
Published in: BMC bioinformatics (2022)
CBMOS is a flexible, easy-to-use Python implementation of the center-based model, exposing both basic model assumptions and numerical components to the user. It is available on GitHub and PyPI under an MIT license. CBMOS allows for fast prototyping on a central processing unit for small systems through the use of NumPy. Using CuPy on a GPU, cell populations of up to 10,000 cells can be simulated within a few seconds. As such, it will substantially lower the time investment for any modeler to check the crucial assumption that model conclusions are independent of numerical issues.
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