PySCeS provides a variety of tools for the analysis of cellular systems
New Release 0.9.1
Windows 7 + Python 2.7 32bit? try "easy_install pysces"
PySCeS is now rated on depsy.org:
- Looking for a new Python based framework for constraint based modelling? Download PySCeS CBMPy.
- New windows 64bit binaries based on Anconda now available for download.
- The PySCeS source code has been moved to GitHub, latest code and tools available from project: PySCeS/pysces
- PySCeS now supports SED-ML simulation export (including COMBINE archives).
- A human readable Model Description Language used to define models.
- The full power of Python available for you to test, build and share your modelling experiments.
- Follow a models evolution over time with solvers like LSODA. Need a more flexible/powerful solver easily extend PySCeS functionality by using the industry standard CVODE (via PySUNDIALS)
- PySCeS includes a selection of non-linear root-finding algorithms that can quickly and efficiently be used to calculate steady state solutions (e.g. HYBRD, NLEQ2).
- Investigate the control and regulation of cellular systems with a completer Metabolic Control Analysis (MCA) module that evaluates elasticities, flux and concentration control coeffcients and response coefficients.
- A structural analysis module for determination of nullspaces and reduced stoichiometric matrix for models up to the genome scale.
- A bifurcation analysis module for the study of systems which exhibit multiple (stable and unstable) steady state solutions (PITCON).
- User friendly methods for generating and 1,2 and n dimension parameter scans.
- Visualise the results of simulations with a unifed, flexible plotting interface that allows for the use of multiple backends e.g. Matplotlib and/or Gnuplot.
- SBML import and export capability is provided by an interface module that converts SBML into the PySCeS MDL and models into SBML.
- User friendly documentation available as docstrings, HTML and PDF.
- PySCeS is developed as Open Source software distributed under its own BSD style licence.
PySCeS in use (papers citing PySCeS):
Interested in finding the latest version of PySCeS try the download section.
2015-12-23: Documentation updated, now available in html, pdf and epub
2014-12-02: PySCeS 0.9.1 has now been released see the download page for details
2014-06-03: PySCeS source now moved to GitHub repository
Are you using PySCeS? Then please cite this paper.
Want to know how people use PySCeS, try searching for citations to the paper or PySCeS.