This web site serves the BioNetGen user community by providing information about BioNetGen and tools for the development, annotation, and discussion of BioNetGen models.
Please send questions, comments, and account requests to bionetgen.help@gmail.com. We will treat all help requests, including models or model snippets, as confidential.
If you use BioNetGen in a work submitted for publication, please cite:
Harris, L. A. et al. BioNetGen 2.2: advances in rule-based modeling. Bioinformatics 32, 3366–3368 (2016).
In addition, please send us an email or send a tweet to @bionetgen. We’d love to hear about it!
Download
- RuleBender
– the graphical interface for BioNetGen that includes BioNetGen and
NFsim source code and executables for Mac, Windows, and Linux.
[Current version is 2.3.2]
- Step-by-step installation guide can be found here.
- BioNetGen – command-line only version that includes BioNetGen and NFsim source code plus executables for Mac, Windows, and Linux. Current version is 2.5.1
Documentation and Tutorials
- FAQ
- Introduction to rule-based modeling with BioNetGen and RuleBender- slides
- Getting started with RuleBender (video)
- BioNetGen Tutorial
Reference
Papers
- Application Note (open access)
- BioNetGen Primer (pdf – free)
- BioNetGen Bible (pdf – free)
- Published BioNetGen models
Contact
- Email: bionetgen.help@gmail.com
- GitHub repositories.
- Twitter: @bionetgen
Acknowledgements
Current development of BioNetGen is supported in part by the NIGMS-funded (P41GM103712) National Center for Multiscale Modeling of Biological Systems (MMBioS). Past support has been provided by NIH grants (GM076570, GM103712, GM085273, AI35997, CA109552), NSF grant 0829788, the Arizona Biomedical Research Commission, and the Department of Computational Biology at the University of Pittsburgh School of Medicine.
BioNetGen and this web site are maintained by the Lab of James Faeder in the Department of Computational and Systems Biology and the University of Pittsburgh School of Medicine.