StochKit2: software for discrete stochastic simulation of biochemical systems with events
StochKit2: software for discrete stochastic simulation of biochemical systems with events
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DOI：
10.1093/bioinformatics/btr401
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发表时间：
2011-09-01
期刊：
影响因子：
5.8
通讯作者：
Petzold, Linda R.
中科院分区：
文献类型：
--
作者：
Sanft, Kevin R.;Wu, Sheng;Petzold, Linda R.
StochKit2是流行的随机模拟软件包的第一次重大升级。StochKit2提供了Gillespie随机模拟算法（SSA）的几种变体的高效实现，以及具有自动步长选择的头跳跃。StochKit2的特点包括基于模型属性自动选择最佳SSA方法、事件处理和多核架构上的自动并行性。代码的底层结构已经完全更新，为扩展其功能提供了一个灵活的框架。
StochKit2 is the first major upgrade of the popular StochKit stochastic simulation software package. StochKit2 provides highly efficient implementations of several variants of Gillespie's stochastic simulation algorithm (SSA), and tau-leaping with automatic step size selection. StochKit2 features include automatic selection of the optimal SSA method based on model properties, event handling, and automatic parallelism on multicore architectures. The underlying structure of the code has been completely updated to provide a flexible framework for extending its functionality.