249 citations · 255 across the 3 of their papers we have counts for
3 papers
Spatial Stochastic Modeling with MCell and CellBlender
Sanjana Gupta, Jacob Czech, Robert Kuczewski +4
This chapter provides a brief introduction to the theory and practice of spatial stochastic simulations. It begins with an overview of different methods available for biochemical s…
Evaluation of Parallel Tempering to Accelerate Bayesian Parameter Estimation in Systems Biology
Sanjana Gupta, Liam Hainsworth, Justin S. Hogg +2
Models of biological systems often have many unknown parameters that must be determined in order for model behavior to match experimental observations. Commonly-used methods for pa…
BioNetGen 2.2: Advances in Rule-Based Modeling
Leonard A. Harris, Justin S. Hogg, Jose-Juan Tapia +7
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 spe…