Efficient stochastic simulation of reaction-diffusion processes via direct compilation.
Efficient stochastic simulation of reaction-diffusion processes via direct compilation.
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DOI：
10.1093/bioinformatics/btp387
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发表时间：
2009-09-01
期刊：
影响因子：
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通讯作者：
Chakraborty AK
中科院分区：
文献类型：
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作者：
Lis M;Artyomov MN;Devadas S;Chakraborty AK
我们提出了随机模拟器的混合和空间异构系统的精确随机模拟工具（SSC）。SSC是第一个工具，允许一个可读的高层次的描述与空间异构的仿真算法和复杂的几何形状，这使得大型系统被简洁地表达。同时，直接本机代码编译允许SSC生成非常快的模拟。可用性：SSC目前运行在Linux和Mac OS X上，可以在http://web.mit.edu/irc/ssc/上免费获得。联系方式：mieszko@csail.mit.edu补充信息：补充数据可从生物信息学在线网站获得。
We present the Stochastic Simulator Compiler (SSC), a tool for exact stochastic simulations of well-mixed and spatially heterogeneous systems. SSC is the first tool to allow a readable high-level description with spatially heterogeneous simulation algorithms and complex geometries; this permits large systems to be expressed concisely. Meanwhile, direct native-code compilation allows SSC to generate very fast simulations. Availability: SSC currently runs on Linux and Mac OS X, and is freely available at http://web.mit.edu/irc/ssc/. Contact: mieszko@csail.mit.edu Supplementary information: Supplementary data are available at Bioinformatics online.