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The Systems Biology Format Converter (SBFC) is a Java generic framework aiming to translate any systems biology model format into another.
The SBFC Web Site providing detailed feature description and instructions for installing, using and developing new modules is: http://sbfc.sourceforge.net/ .
Currently, SBFC allows the user to convert SBML models into the formats: BioPax, Matlab, Octave, XPP, DOT, and SBGN.
Numerical models for chemical and process engineering
NCE Calculation Framework is a library of routines, models and data applicable to chemical and process engineering calculations, written in Java.
-- NEW -- www.chesolver.com *ONLINE CALCULATORS*. A set of solvers to perform calculations consistently on any device, from smart-phone to desktop.
The project includes the following ready to use software all based on the same core library:
* Online Calculators at www.chesolver.com
* Extensions for Libreoffice/Openoffice Calc...
A simulation environment for physiology models simulation
The OpenHealhPractice Simulation Environment is a webframework intended to concurrently manage and launch generalized models. Models can be uploaded by the users and also can be connected to other models in order to simulate them in a row.
These simulations are stored and can be reviewed or deleted at anytime. The Graphical Visualization Environment (GVE) provides the graphical visualization of the simulation results.
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experimaestro is an experiment manager, and is composed of (1) a job scheduler that handles dependencies and locking (2) a modular experiment description framework, that allows easy description of the various parts of an experiments.
Swarm framework for chemicals, to neurons, to group models and species models and etc. I will try to keep one version of the code independent of any platforms, but I will also be integrating the code with JADE, JBoss and my software.
Metaquokka is a highly configurable xml editor, currently available as Gridsphere portlet. Besides the default format, there is suppoert for ESysXML, a simulation description scheme for a geodynamics framework. Supports Generic Mapping Tools rudimentary.
Virtual interactive experiments (vexp) is a framework to promote the developmentand use of cooperative e-learning experiments over the internet. Interactive scientific experiments which can be controlled by various users synchronously.
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This is a framework to develop Contexts and Agents and a Container to run them. The Container lets each Agent interact with the Context and other Agents. The agents are deployed in jar files and each one runs in an exclusive sandbox.