BioNetGen 2.2: Advances in Rule-Based Modeling
Leonard A. Harris, Justin S. Hogg, Jose-Juan Tapia, John A. P. Sekar,, Sanjana A. Gupta, Ilya Korsunsky, Arshi Arora, Dipak Barua, Robert P., Sheehan, and James R. Faeder
TL;DR
BioNetGen 2.2 enhances rule-based modeling of biochemical systems by introducing new features that enable the construction, simulation, and analysis of more complex models than before.
Contribution
The paper presents new features in BioNetGen 2.2 that improve model specification and simulation capabilities for complex biochemical systems.
Findings
Supports larger and more complex models
Improves simulation efficiency
Facilitates advanced analysis of biochemical networks
Abstract
BioNetGen is an open-source software package for rule-based modeling of complex biochemical systems. Version 2.2 of the software introduces numerous new features for both model specification and simulation. Here, we report on these additions, discussing how they facilitate the construction, simulation, and analysis of larger and more complex models than previously possible.
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