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ByoDyn (http://cbbl.imim.es/ByoDyn) is a software tool for the study of biochemical networks within the framework of systems biology. SBML compatible, ByoDyn is a group effort of the Computational Biochemistry and Biophysics Lab.
Java based multi-agent platform built on an organizational model (agent, group, role). MadKit provides general agent facilities (lifecycle management, message passing, distribution, ...), and allows high heterogeneity in agents.
Emulica provides manufacturing control engineers and researchers with generic modeling components to build industry-scale virtual (emulated) shop floor systems, and thus test control approaches.
This is a set of Python classes that can be used to simulate dynamic multi-body systems. It used to be a project for studies. Now it is not being worked on anymore, but it is completely GPLized.
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.
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.
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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.
Guanxi is a robust analysis and simulation application for Social Network Analysts. Guanxi allows researchers in the field to create, import, and export an endless array of networks, analyze their structure, and run custom dynamics over them.
vtkModeling-beta.zip: it is an extension of Visualization ToolKit 5.0. Basically it's a collection of deformation algorithms, like laplacian surface editing, moving least square, mass spring system, etc.
The Location Containment Object Model(LCOM) is a simulation framework written in Python. LCOM provides a rule-based solution to handling partial object containment, object migration, message passing, and simulation observation.
MC Traffic es un software que modela el tráfico de la Ciudad de México. Escrito principalmente en Python y Pygame, MC Traffic permite usar imágenes descargadas de Google Maps para hacer simulaciones controladas.
Programs to download and work with satellite measurements, calculate solar wind (SW) propagation time and compare data to other satellites. It uses and compares different modern techniques to determine the SW planar structures orientation.
BARNACLE is a Python library for RNA 3D structure prediction. It can be used for probabilistic sampling of RNA structures that are compatible with a given nucleotide sequence and that are RNA like on a local length scale.
Use SASSIE to generate and manipulate large numbers of molecular structures and then calculate the SAXS, SANS, and neutron reflectivity profiles from atomistic structures. Use for intrinsically disordered proteins. We need alpha-testers and developers.
Spyse is a software framework for building multi-agent systems. It allows Python developers to build distributed intelligent systems of multiple cooperative agents based on FIPA, OWL, SOA and many others. Spyse is designed for ease-of-use and fun.
GAI is a graphical GIS based front end to ANUGA which allows convenient and visual tools for setting up hydrodynamic models. GAI depends on ANUGA to run the models created by GAI.
Brian is a new simulator for spiking neural networks available on almost all platforms. The motivation for this project is that a simulator should not only save the time of processors, but also the time of scientists.
Pydusa is a package for parallel programming using Python. It contains a module for doing MPI programming in Python. We have added parallel solver packages such as Parallel SuperLU for solving sparse linear systems.