Department of Cell & Molecular Biology, Science for Life Laboratory, Uppsala University, BMC Box 596, SE-751 24 Uppsala, Sweden.
Bioinformatics. 2012 Dec 1;28(23):3155-7. doi: 10.1093/bioinformatics/bts584. Epub 2012 Oct 7.
MesoRD is a tool for simulating stochastic reaction-diffusion systems as modeled by the reaction diffusion master equation. The simulated systems are defined in the Systems Biology Markup Language with additions to define compartment geometries. MesoRD 1.0 supports scale-dependent reaction rate constants and reactions between reactants in neighbouring subvolumes. These new features make it possible to construct physically consistent models of diffusion-controlled reactions also at fine spatial discretization.
MesoRD is written in C++ and licensed under the GNU general public license (GPL). MesoRD can be downloaded at http://mesord.sourceforge.net. The MesoRD homepage, http://mesord.sourceforge.net, contains detailed documentation and news about recently implemented features.
MesoRD 是一个用于模拟由反应扩散主方程建模的随机反应扩散系统的工具。模拟系统在系统生物学标记语言中定义，并添加了定义隔室几何形状的内容。MesoRD 1.0 支持与邻接子体积中的反应物之间的尺度相关的反应速率常数和反应。这些新功能使得在精细的空间离散化下也可以构建扩散控制反应的物理一致模型成为可能。
MesoRD 是用 C++编写的，并根据 GNU 通用公共许可证（GPL）获得许可。MesoRD 可在 http://mesord.sourceforge.net 下载。MesoRD 主页 http://mesord.sourceforge.net 包含有关最近实现的功能的详细文档和新闻。
