DESCRIPTION

The Beta Workbench (BetaWB) is a free downloadable software prototype for non commercial purposes (see below) upon acceptance of this licence.
BetaWB is a collection of tools based on BlenX, a language explicitly designed to represent biological entities and their interactions.
The BetaWB includes the BetaWB simulator, a stochastic simulator based on an efficient variant of the Gillespie algorithm, the BlenXDesigner, a graphical editor for developing models and the BetaPlotter, a tool to analyse the results of a stochastic simulation run.
The current version of BetaWB is 3.0.

SCREENSHOTS

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Documentation

• A quick introduction to BlenX
• BlenX: a programming language for systems biology
• Executing BlenX programs and interpreting output files
• Reading output files with BetaPlotter
• Authoring models with BlenXDesigner
• General distributions in BlenX
• FAQ

Other resources

• BlenX language tutorial
• Collection of models

REFERENCES

• The Beta Workbench: a computational tool to study the dynamics of biological systems.
  Lorenzo Dematté, Corrado Priami, Alessandro Romanel.
  Briefings in Bioinformatics 9(5):437-449, © Oxford Journals, 2008.


• Programming Biology in BlenX.
  Lorenzo Dematté, Roberto Larcher, Alida Palmisano, Corrado Priami, Alessandro Romanel.
  In Systems Biology for Signaling Networks, Ed. Sangdun Choi, © Springer, 2010. (to appear)

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