Open Source Simulation Software - Page 28

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

This project has moved to GitHub https://github.com/BioGearsEngine/Engine

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/

Bioleiro is a Bioloid-based quadruped robot controlled by a PC.

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

This C# application is a simulation that attempts to test the feasibility of deploying the now famous High-Low card counting technique paired with Basic Strategy rules. Some human error factors can be adjusted and winnings are displayed.

A blackjack simulator

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.

FreeBlockSim is a graphical block diagram editor/simulator for use with FreeSim++. FreeSim++ is a free to use C++ block library for dinamical systems simulation. Available soon on www.estudios-electricos.com

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.

A cycle-accurate interconnection network simulator. Brought to you by the Concurrent VLSI Architecture group at Stanford University. The SourceForge website is no longer actively maintained. Instead, please follow the link in the profile.

BorealSE is a simulation engine writen in Java that aims to be a platform for distributed discrete event simulation models. It also aims to incorporate the ideas and benefits of OOP so that simulation models can be written on top of reusable components.

Boxcomp is compression estimation program for corrugated fiberboard packaging. It is principally aimed at Regularly slotted Case designs, but can be used to estimate other styles by amending the parameters.

BrainBox is a simulation toolbox, similar to MatLab, that simulates physical and mathematical models remotely via WebServices. BrainBox provides a user interface to help create the diagrams and interact with the simulation results with a built-in languag