Efficient stochastic simulation of reaction-diffusion processes via direct compilation.
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.
Lis
Mieszko
M
Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. mieszko@csail.mit.edu
Artyomov
Maxim N
MN
Devadas
Srinivas
S
Chakraborty
Arup K
AK
D000465:Algorithms; D003198:Computer Simulation; D004058:Diffusion; D013269:Stochastic Processes