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Python framework for Systems Biology modeling

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as_complex_pattern converts Monomers

This prevents all constructors that depend on as_reaction_pattern
or as_complex_pattern to take MonomerPattern from throwing an error
when given a Monomer instead.

In particular, this resolves issue number #88, in which the Observable
constructor would error when a Monomer was used instead of a
latest commit 725ceec703
johnbachman johnbachman authored April 21, 2014
Octocat-spinner-32 doc
Octocat-spinner-32 pysb
Octocat-spinner-32 scripts
Octocat-spinner-32 vm post-0.1.9 updates to vm and docs January 02, 2013
Octocat-spinner-32 .gitignore
Octocat-spinner-32 LICENSE.txt
Octocat-spinner-32 README.rst


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.

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