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ea-fold is a platform to perform protein folding simulations by means of evolutionary algorithms. The program implements a parallelized distributed evolutionary algorithms and a flexible force field.
OpenFlower is a free and open source CFD code (for Linux and Windows) mainly intended to solve the turbulent incompressible Navier-Stokes equations with a LES approach. It can deal with arbitrary complex 3D geometries with its finite volume approach.
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free2bind a suite of general purpose bioinformatics tools for computing the minimum free energy (the most stable) binding between two separate RNA molecules.
This is an extension to the standard 2D HF package (A Numerical Hartree-Fock Program for Diatomic Molecules by Jacek Kobus, Leif Laaksonen and Dage Sundholm) that adds some extra functionality.
A Fast MAC based 3D Free surface fuid solver. Capable also of simulating viscoelastic fluids.Includes also wave equation solver for simulating shallow water phenomena.
KHorn is a universal easy to use CAS (Computer Algebra System). It will be usable for Physics, Chemistry, Mathematics and other natural sciences. KHorn is based on the GMP library.
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sispread allows to simulate the dynamics of an hypothetic infectious disease within a contact network of connected people. It is intended to help people concerned by public health to easily perform epidemic simulations and to analyze their results.
KU1K is a set of tools for 4D,5D and 6D compact U(1) lattice gauge theory Monte Carlo simulation using the Skipis-Vantzos algorithm. As the calculations involved, even for the 4D case, are consuming, the project is modular so as to run on the Grid.
The Physicist is a high end physics simulation engine that can provide answers with reasonable accuracies(now w/ rk4 and euler options). It can currently predict the motion of many particles.It Employs OpenGL to provide cutting edge graphics support.
Gerris is a tool for generic numerical simulations of flows (CFD), in geometrically complex geometries and including adaptive, multiphase and interfacial flows capabilities.
Diagram (JGraph) driven simulator. Bondgraphs > nonlinear differantial system > plot: implemented for economics and ecology. Network analysis: emergy propagation implemented. Would also fit for electronics, mechanics, cost, GWP, footprint analysis.
Fortran tools to write standardized NetCDF output for a variety of ocean circulation models. The files contain required metadata to be compatible with DMACS standards. And a C++ particle trajectory tool reads NetCDF files to make particle paths.
We use R (www.r-project.org) in order to generate a greater specificity and sensitivity of protein identification by Mass Spectrometry. These functions are implemented as add-on packages to the open source GPL software R.
Note: New versions are not being posted to source forge. Please check the project homepage at: http://www.cove.org/flade A free library for simulating 2D physics in Flash using Verlet integration. It currently features particles, stick & angular constra
Fully playable Java game demo illustrating basic game programming technics, such as sprite animation, pixmap fonts, time or frame related game loop, affine transformations, convolution filters, sound generation and playback...
Robotic Manipulator Development and Simulation Environment in Python and Blender. IMPORTANT: Development moved to github. http://github.com/ajnsit/r2d3
runsbml - Pathway Simulation Tool emulates the dynamics of biological pathways by calculating concentrations of biochemical compounds at different times and conditions.
This is a collection of utilities and other nifty code items developed by Thought River for use in internal projects, and made available here for public use.
This library is a Fortran 95 gnuplot interface for some Unix like OS'es. This provides some routines that enables direct access of a child gnuplot session from a Fortran 95 program. You will need a copy of fortranposix to make this work.