Python framework for Systems Biology modeling
Python Other
Latest commit 1eee9ca Jun 30, 2016 @jmuhlich jmuhlich committed on GitHub Merge pull request #224 from johnbachman/with_model_self_export
Reset SelfExporter state after calling with_model
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doc Fix problems with ReadTheDocs build Jun 24, 2016
pysb Reset SelfExporter state after calling with_model Jun 30, 2016
scripts py3: Convert to print_function Jul 26, 2015
.travis.yml Add KAPPAPATH environment variable to .travis.yml Apr 5, 2016
Dockerfile Update Docker setup Jun 27, 2016
LICENSE.txt preparation for pypi release Apr 6, 2012
README.rst Switch to setuptools Sep 29, 2015
setup.cfg Add BNGFileInterface, in addition to BNGConsole Oct 1, 2015 Add versioneer to generate our version string Sep 30, 2015



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Python Systems Biology modeling framework

PySB (pronounced "Pie Ess Bee") is a framework for building rule-based mathematical models of biochemical systems. It works nicely with scientific Python libraries such as NumPy, SciPy and SymPy for model simulation and analysis.


PySB depends on the following:

For full instructions, see the Installation chapter of the manual.


The manual is available online at You can also generate the documentation locally by installing Sphinx and running the following commands:

$ cd doc
$ make html

Then open _build/html/index.html in your web browser.