betsee 1.1.1.0

Description:

betsee 1.1.1.0

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.




Contents

Installation
License
Citation
Authors
Funding



Installation
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]


[1]
Globally replace all instances of the substring betse with betsee
(e.g., pip3 install betsee rather than pip3 install betse) in these
instructions, which technically refer to BETSE rather than BETSEE.




License
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:

All Entypo+ icons distributed with BETSEE,
kindly released under the permissive CC BY-SA 4.0
license by Daniel Bruce.
All Noun Project icons distributed with BETSEE, kindly released under the permissive
CC BY 3.0 license by various authors, including:

Maxim Kulikov, author of the salubrious bovine
prominently displayed on this project page.


All Open Iconic icons distributed with BETSEE, kindly released under the permissive
MIT license.



Citation
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).
https://doi.org/10.3389/fbioe.2016.00055

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


[2]
This article’s supplement extends the cursory theory presented by this
article with a rigorous treatment of the mathematics, formalisms, and
abstractions required to fully reproduce this work. If theoretical questions
remain after completing the main article, please consult this supplement.




Authors
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.


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

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 .