Modern biological experiments generate large amounts of data describing intracellular dynamics.
Rule-based languages for describing intracellular biochemistry allow for the construction and simulation of detailed models with unprecedented scope and precision. Rule-based Models can be used to suggest new hypotheses and new ideas for future experimentation.
Rule-based models can be difficult to understand and time consuming to debug.
RuleBender is a free tool for constructing, debugging, simulating and analyzing rule-based biological models in the BioNetGen language.
When using RuleBender, please cite:
A.M. Smith, W. Xu, Y. Sun, J.R. Faeder, G.E. Marai, “RuleBender: Integrated Modeling, Simulation and Visualization for Rule-Based Intracellular Biochemistry”, BMC Bioinformatics, 13(Suppl 8):S3: 1-24, Jun 2012.