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Braincirc is an open source modelling environment for building and sharing models. It is designed for UNIX-like systems, and is particularly appropriate for biological/chemical models. Below is the latest release with some SBML support.
NetEmul is a program for simulating computer networks. It makes possible to build, configure networks and verify its availability. This program allows beginners to see a principles of operation CN and gives a scope for experiments.
A reactor solver which uses stochastic particle methods to model particle population balances. This code is developed by the CoMo group in the chemical engineering department at the university of Cambridge (como.cheng.cam.ac.uk).
The BioSimz project aims to deliver a library (as well as the interface) to conduct large-scale biomolecular simulations at their atomic scales of detail. The initiative idea is to observe the protein crowding in vivo; it now can do much more than that!
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Shawn is a discrete event simulator for large wireless sensor networks. It does not compete with others well-known simulators by simulating individual ISO layers and the protocols within these layers. Shawn emerged from a more algorithmic approach.
THE PROJECT HAS BEEN MIGRATED TO GITHUB: https://github.com/itm/shawn
The SBML ODE Solver is a command-line tool and programming library (ISO/ANSI C) for construction and numerical integration of an ODE system, derived from an SBML based description of a biochemical reaction network.
Development has moved to https://github.com/raim/SBML_odeSolver . Please download the latest version from there!
This is a development code for computer science research. It implements a solver for compressible gas dynamics. The code is distributed-memory parallel using MPI and data-parallel using the OpenCL framework.
Ouroborus is an artificial life framework for mobile agents on a background of cellular automata. It can be used to teach and research topics such as population genetics, ecology and evolution. The demo includes a curses view and live Csound audio.
A general purpose Robotics simulator framework and implementation.
Built as a project for the Center for Intelligent Systems in the Computer Science department in the Technion.
Fly! Legacy is a flight simulation platform that is fully compatible with all aircraft, scenery and other data files for the Fly! II flight simulator by Terminal Reality Inc. (TRI).
aLice - ALice is likely the most Inefficient Code Ever written for boundary elements It is a c++ multi-platform code (tested on MAC-OS X 10.5, Win32, Ubuntu linux 9.04) for BEM analysis of steady and time dependent problems (in progress)
FAUNUS is an object oriented class library for molecular simulation, written in C++. It contains routines and utility programs for, Metropolis Monte Carlo sampling (NVT, NPT, NmuT ensembles), Macromolecules, Proton Titration, Widom Analysis etc.
Simonion does not exist anymore; the package name is changed into Simbuca and is updated on the Simbuca webpage:
https://sourceforge.net/projects/simbuca/
A Software project to assimilate solar magnetograms into suitable physics based models of the solar wind expansion. To predict the solar wind conditions at the Earth and at outer planets. Or any space-craft location in the solar system.