Open Source Linux Simulation Software - Page 23

Basic life is an application that desires to simulate basic life based on some basic chemistry/physics rules. This environment provides particles that can bond, vibrate, react, etc. in order to create basic cells

Built with R, this code allows the user to simulate the game of basketball. While the main focus is on simulating the NBA, the code provides a framework for simulating other leagues by modifying the default set of rules.

This project is aimed at analysis of the bat's cochlear model for its echo location performance. It uses DSP and statistical/stochastic signal processing theory. Language: Matlab and C/C++

A game/toy that simulates a world environment with organisms to survive: game of life with more complex rules. Every programmer can make his/her own organisms and compete with others. Hopefully in the future it will support genetics.

Bayesian Surprise Matlab toolkit is a basic toolkit for computing Bayesian surprise values given a large set of input samples. It is also useful as way of exploring surprise theory. For more information see also: http://ilab.usc.edu/

An Open Source IEC 61131-3 Integrated Development Environment, providing PLCOpen SoftPLC programming, CanOpen IO's, and SVG based HMI.

BigBoy is a three dimensional Finite-Difference Time-Domain (FDTD) simulator for photonics (plasmonics, photonic crystals or high index-contrast structures). Please, refer the successor of this project, GMES (http://sf.net/projects/gmes).

It could help you to carry out numerous experiments on the billiard table. ATTENTION! X Window System, GLUT, OpenAL are required (https://stackoverflow.com/questions/3907064/installing-opengl-and-openal-in-ubuntu)

Our goal is to create an open source framework and toolset for modeling dynamic cellular network functions, and to develop a user community committed to using, extending and exploiting these tools to further our knowledge of biologic processes.

Bio.Cairn is a library of highly-configurable high-performance modules to support numerical simulators for biological processes. Written in ANSI-standard C++, it makes extensive use of template metaprogramming and the BOOST libraries.

BioFVM is an open source diffusive transport solver for biological problems. It can solve for the diffusion of tens or hundreds of substrates on large 3-D domains. For simplicity, the code has minimal external dependencies. BioFVM was first published in: A. Ghaffarizadeh, S.H. Friedman, and P. Macklin. BioFVM: an efficient, parallelized diffusive transport solver for 3-D biological simulations. Bioinformatics 32(8): 1156-8, 2016. DOI: 10.1093/bioinformatics/btv730 method paper: http://dx.doi.org/10.1093/bioinformatics/btv730

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!

BioSpring is a molecular simulation software based on a spring network model, including non-bonded interactions, especially designed for Interactive Molecular Dynamics. It incorporates MyPal for locating ion binding sites and IMPALA for interactive placement of membrane proteins in a membrane environment.

This project is a modification of the original evolution simulation & artificial life project by Joan Queralt Molina: https://sourceforge.net/projects/biogenesis/ In both, the original project and this modification, 2-dimensional organisms consisting of line segments interact with each other, reproduce and evolve in time. Compared to the original project, this modification explores the following features: * alternative mutation mechanisms * an alternative stress-based aging mechanism It is based on the new_design branch of Biogenesis (https://sourceforge.net/p/biogenesis/git/ci/new_design/tree/), its source code can be obatained from http://sourceforge.net/p/biogenesisxmod/code/ci/xmod/tree/ If you want to post a review, remember that this is only a modification, so comment on my changes, not on the simulation. Biogenesis discussion forum: https://sourceforge.net/p/biogenesis/discussion/

Biologic Institute's Stylus simulation software suite. (See the SVN repository for source code.)

Biome is a C++ library for the development of (individual-based) simulations.

Investigacion de diseño avanzado en biomecanica computacional con elementos finitos usando herramientas de software-libre.

Biskit is a python library for structural bioinformatics research. It simplifies the analysis of macromolecular structures, protein complexes, and molecular dynamics trajectories and offers a platform for the rapid integration of external programs. PLEASE NOTE: The Biskit source code as well as any later releases are now hosted on https://github.com/graik/biskit The sourceforge repo is only kept here for reference.

BitBang is an agent-based simulation framework, best suited for complex systems or artificial life research. It is developed with ease of integration in mind, allowing the interplay with existing 3D and physics engines.

A framework built on Berkley's Ptolemy. Runs a variety of bit width optimization algorithms and suggests bit widths. Includes parsers for simulink and system generator.

The Brunswick Science Fair Project is an attempt to evolve code snippets into complex organisms. Programmed in Java

Using Blender3D as an interface for NC Simulation and Visualization

Blit contains a group of highly efficient iterative sparse solvers that can handle multiple right-hand-sides (i.e. block solvers). We will implement BLQMR, BLGMRES and other block algorithms in MATLAB, FORTRAN 90, C/C++, CUDA and OpenCL.

Blubber system is an Eclipse RCP application for distributed systems modeling. Designed for university researches and inlcudes: task graph editor; graph transformation tools; graph modelling on distributed system; real-time modelling on GerdaFramework.

"Blue Planet" is a research project simulating the behaviour and darwinian evolution of unicellular lifeforms, each controlled by its own genetic program. Moreover, "Blue Planet Inhabitants" are suited for swarm intelligence and swarm research.