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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.
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.
qsims simulates quantum dynamics with an (almost) arbitrary time-dependent Hamiltonian. qsims uses a Chebychev polynomial expansion of the Schrodinger propagator, and the pseudospectral method developed by R. Kosloff.
sheep is an open source rigid body dynamics engine written in modern, strictly portable C++. It features collisions between hierarchies of convex polyhedra (using the SWIFT library), resting contacts handling and an extensible set of joints.
MEDDAC is the seeding point for designing a new approach to Operating System design itself. It is an Open Source project with roots in mainframe design and development the author began in 1979. Monitor Editor Disassembler Decompiler Assembler Compiler
toxic is a modern, physically correct global illumination renderer aiming to produce photorealistic images and animations. A number of plug-ins are under development to allow using toxic with various open source and commercial 3D modeling packages.
a C++ template container implementation of k-dimensional space sorting based on the kd-tree data structure. THIS PROJECT HAS MOVED TO ALIOTH.DEBIAN.ORG
The fst2v5d package converts data stored in the Canadian RPN Standard File (FST) format into Vis5D format. FST files, commonly used to store meteorological data, are scanned by fst2v5d to generate both 4D fields and independent topography input files.
OpenSim - Open Simulator. Primarily a 3D simulator for multiple indoor and outdoor mobile robots. Includes 3D real-time rendering (via OSG) and a physics engine (via ODE). Current emphasis is on manipulators.
ODE for Java is a binding between C dynamics library ODE (Open Dynamics Engine, http://ode.org) and Java. Separate packages provide among other things a Java3D integration and thus a scenegraph representation of selected ODE objects.
6Vertex is an Objective C/Cocoa application (and standard C functions) for computing and visualizing matrix models generated with the 6-vertex model for computing boundary shapes and phase transition shapes for differently weighted vertices.
pSmunli is another opensource Physics SiMUlatioN LIbrary in 3D environment. To perform more realistic simulation on your application(such as game and scientific simulation). It supports OpenGL and DirectX.
Computational modelling is a interdisciplinary field spanning many techniques and programming languages. AgenTools is a project dedicated to establishing increased modularity in scientific computing packages and a portal linking to other existing project
GAST-Viz is a toolkit allowing for the creation of OpenGL atomistic simulation applications using discrete element modeling methods. A number of sample applications are included.
CPPScaLapack is a C++ class wrapper for PBLAS and ScaLAPACK with MPI. CPPScaLapack provides a user-friendly interface of high-speed parallel matrix calculation with BLAS and LAPACK techonologies for programers concerning with large-scale computing.
OCW is a scripting language and interpreter for controlling complex operations of valves and pumps in microfluidic devices. The interpreter program uses parallel ports to interface with any automation project. The program runs on Linux and Windows.
BlochLib is an expression template library of generic data structures and algorithms to perform large scale nuclear magnetic resonance classical and quantum mechanical spin simulations, with many I/O capabilities,and integrated numerical routines.
Mantis Robotic project consists of an open-source sets of reusable
C/C++ libraries for manipulation of diverse kinds of robots,
mostly for educational purposes and hobbies.