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BETSEE, the BioElectric Tissue Simulation Engine Environment.

Project description

BETSEE (BioElectric Tissue Simulation Engine Environment) is the open-source cross-platform graphical user interface (GUI) for BETSE, a finite volume simulator for 2D computational multiphysics problems in the life sciences – including electrodiffusion, electro-osmosis, galvanotaxis, voltage-gated ion channels, gene regulatory networks, and biochemical reaction networks (e.g., metabolism).

Like BETSE, BETSEE is portably implemented in pure Python 3, continuously stress-tested with GitLab-CI × Appveyor + py.test, and permissively distributed under the BSD 2-clause license.


BETSEE is universally installable with either:

  • [Recommended] pip, the standard Python package manager:

    pip3 install betsee
  • Anaconda, a third-party Python package manager:

    conda config --add channels conda-forge
    conda install betsee

See our installation instructions for details. [1]


BETSEE is open-source software released under the permissive BSD 2-clause license. BETSEE contains third-party assets also released under BSD-compatible licenses, including:


BETSE is formally described in our introductory paper. Third-party papers, theses, and other texts leveraging BETSEE (and hence BETSE) should ideally cite the following:

Alexis Pietak and Michael Levin, 2016. Exploring instructive physiological signaling with the bioelectric tissue simulation engine (BETSE). (Supplement). [2] Frontiers in Bioengineering and Biotechnology, 4(55).

See also this list of BETSE-centric papers for additional material.


BETSEE comes courtesy a dedicated community of authors and contributors – without whom this project would be computationally impoverished, biologically misaligned, and simply unusable.

Thanks, all.


BETSEE is currently independently financed as a volunteer open-source project. Prior grant funding sources include (in chronological order):

  1. For the three year period spanning 2017—2019, BETSEE was graciously associated with the Paul Allen Discovery Center at Tufts University and supported by a Paul Allen Discovery Center award from the Paul G. Allen Frontiers Group .

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