Showing 29 open source projects for "cell"

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  • 1
    Smilei

    Smilei

    Particle-in-cell code for plasma simulation

    Smilei is an open-source electromagnetic Particle-In-Cell code for kinetic plasma simulation. It is designed for high-performance computing and can run on modern supercomputing architectures. The software is co-developed by physicists and computer scientists, which gives it both strong numerical physics capabilities and serious parallel-performance engineering. Smilei supports a wide range of plasma studies, including laser-plasma interaction, accelerator physics, space physics, and astrophysical plasmas. ...
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  • 2
    NeuroML is an XML-based description language for defining and exchanging neuronal cell, network and modeling data including reconstructions of cell anatomy, membrane physiology, electrophysiological data, network connectivity, and model specification
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  • 3
    GroIMP

    GroIMP

    Growth-grammar related Interactive Modelling Platform

    ...It is fully integrated, e.g., the user can interactively select the rules to be applied. GroIMP provides classes that can be used in modelling: Turtle commands, further geometrical classes like bicubic surfaces, the class Cell which has been used in the Game Of Life implementation, and so on. The outcome of a model is visualised within GroIMP. In the visual representation of the model output, users can i
    Downloads: 3 This Week
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  • 4
    dsam
    The Development System for Auditory Modelling (DSAM) is a computational library designed specifically for producing simulations of the auditory system. It brings together many established auditory models within a flexible programming platform.
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  • 5
    PMCGPU

    PMCGPU

    Parallel simulators for Membrane Computing on the GPU

    Membrane Computing is a new research area (within Natural Computing) that aims to provide computing devices abstracted from the functioning and structure of living cells. These devices are called P systems. The objective of this project (PMCGPU) is to bring together all the researchers working on the development of parallel simulators for P systems, specially those using the GPU (e.g. CUDA, OpenCL, etc). Other parallel platforms are also welcome (multicore and manycore, FPGAs,...
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  • 6
    ...Fuel cells http://en.wikipedia.org/wiki/Fuel_cell are devices that convert hydrogen and oxygen to water and electricity, and are promising renewable energy conversion devices. Computational fluid dynamics tools are used to size and rate fuel cell systems. OpenFoam is an open source CFD toolbox, available for downloading at http://www.openfoam.com/, written in C++ and conforming to the object-oriented paradigm.
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  • 7

    Molecular Dynamics Studio

    Molecular Dynamics Cell Construction

    ...NanoEngineer-1 is a molecular CAD software written by Nanorex and provides the user an easy way to create molecules, while the software modifications allow the user to type atoms using multiple force fields. PACKMOL can generate a random collection of molecules using the molecule templates from NanoEngineer-1 thus providing the initial MD cell. Modifications to PACKMOL allow the atom type data to be passed through to the MSI2LMP software. MSI2LMP creates a LAMMPS input file based on class I or class II force fields. MSI2LMP was modified to use numerically coded force field data generated by NanoEngineer-1. The MMP file format was extended and integrated into all three software applications. ...
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    Downloads: 28 This Week
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  • 8

    Advanced Vehicle Simulator

    Advanced vehicle simulator

    ...ADVISOR is a MATLAB/Simulink based simulation program for rapid analysis of the performance and fuel economy of light and heavy-duty vehicles with conventional (gasoline/diesel), hybrid-electric, full-electric, and fuel cell powertrains. New features are developed under the title "Advanced Vehicle Simulator". Periodically, stable versions of Advanced Vehicle Simulator will be submitted for consideration as the next canonical version of the ADVISOR software. ADVISOR is a registered trademark of the Alliance for Sustainable Energy, LLC, the manager and operator of the National Renewable Energy Laboratory for the United States Department of Energy. ...
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    Downloads: 27 This Week
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  • 9

    Virtual Cell

    Former home of the Virtual Cell platform (VCell), see http://vcell.org

    This project and all source code has moved to GitHub, see https://github.com/virtualcell
    Downloads: 0 This Week
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  • 10
    experix laboratory control system

    experix laboratory control system

    instrument control, data acquisition display and analysis

    ...Interfaces accessible via commands and scripts: file i/o modelled on stdio and stdlib; usb control and bulk transfers; socket operations; webcam; graphics via framebuffer. Applications (not all available yet for download) include: cell poker (like an atomic force microscope); tissue mechanical tester; fluorescence photobleaching; alternating laser excitation fluorescence; fluorescence intensity distribution analysis; iverilog simulation analysis.
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  • 11
    Software suite for cell modelling
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  • 12
    FAST Simulations

    FAST Simulations

    An Open source Analysis and SImulation Toolbox for Fuel Cells

    FAST is an Analysis and Simulation Toolbox (FAST) for Fuel Cells (FC) FAST-FC is the doctorate work of David B. Harvey and was developed with support from the U.S. DOE, Ballard, and Queen's University. Derivative works of FAST-FC include FC-APOLLO which is a forked branch of this project intended to capture the code state at the exit of the funded DOE project. FAST-FC is the open and active community branch. FAST-FC is developed and maintained by the original creator and...
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  • 13
    OPar

    OPar

    OPen ARchitecture PARallel PARticle code

    NOTICE: The current version of OPar is hosted on GitHub https://github.com/holgerschmitz/Opar This repository on Sourceforge is no longer maintained! OPar is an open architecture Particle-In-Cell (PIC) code for plasma simulations. The code is based on the Schnek framework.
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  • 14
    Exreco

    Exreco

    EXperimental REplicator COllider

    The project is moved to GitHub : https://github.com/bekisz/exreco/ Exreco is a agent based platform for the simulation and study of the Darwinian evolutionary process. It aims to support the exploration of genetically rooted phenomena like - aging (programmed cell death) - sexual and asexual reproduction - altruism of individuals - spread of diseases The typical way of using Exreco starts by defining the behavior of your replicators ( agents that can reproduce and evolve over time), and defining the environment of these replicators. If it is all done you can let it run observing what kind of genes prevail over time. ...
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  • 15

    ECMM

    OMNET++ implementation of the Enhanced Community-based Mobility Model

    This project enables the introduction of community-based mobility models into the OMNET++ simulation environment. These models provide many desired characteristics, such as socially influenced mobility decisions and are quite realistic. One specific model, namely the Enhanced Community-based mobility model, is very suitable for opportunistic routing research comparing to the others, because of its advanced properties. These include a pause period, conformance to the existing social ties and...
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  • 16

    neuranep

    Neural Network Engineering Platform

    ...NeuraNEP emulates a distributed processing environment capable of handling millions of microthreads in parallel, for example running neural networks with millions of spiking cells. Microthreads are general processing elements that can also represent non-neural elements, such as cell populations, extracellular space, emulating sensory activity, etc. NeuraNEP handles microthread scheduling, synchronization, distribution and communication. This project is a fork of SpikeOS (sourceforge.net/projects/spikeos) and represents a major update to that code base, including a scripting interface and low-level rewrite of several components. ...
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  • 17

    Migration of cells in a social context

    Model of the migration of 3T3 fibroblast cells in social context

    Code updated. There were a few errors in the physical model of the concentration field of secreted chemokine surrounding each cell, together with a few coding errors. All have been corrected, the model refitted, and all simulations presented in the paper repeated. Results from this corrected model are on par with the published results. See pdf file for details.
    Downloads: 0 This Week
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  • 18
    ViennaGrid is a generic mesh handling library that provides the traversal of structured and unstructured grids in arbitrary spatial dimensions, in particular 1d, 2d and 3d. Quantities can be conveniently stored on mesh elements using ViennaData.
    Downloads: 0 This Week
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  • 19
    minydro

    minydro

    A simple hydrodynamic code less than 700 lines long!

    A short and simple hydrodynamic Godunov code using a cell-based structure. This program is free to use. It was designed mainly for teaching purposes and it is made freely available in the hope that someone may find it useful.
    Downloads: 0 This Week
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  • 20
    Depolarization analysis tools

    Depolarization analysis tools

    Tools for the accurate analysis of Raman depolarization measurement

    ...The model deals as well with the conditional aperture parameters, associated with more than one optical component in the light collection path. Finally, the model also takes into account polarization aberrations introduced by the sample cell windows.
    Downloads: 0 This Week
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  • 21
    Celeste Cellular Automaton Simulator

    Celeste Cellular Automaton Simulator

    A tiny and very simple cellular automata simulator. Abandoned, ignore.

    Celeste is a tiny and simple Cellular Automata simulator written in Java. It is a command line application that writes an image of each simulation step. Celeste was designed to run Conway's Game of Life but other rulesets can be implemented as well. It is released under the extremely permissive WTFPL.
    Downloads: 0 This Week
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  • 22
    simBio is a Java package to create biological models for biologist and others. Cardiac cell models are available.
    Downloads: 1 This Week
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  • 23
    A verilog language compiler written using Java and JavaCC. It produces a netlist, an ascii text file, of all the cell connections. It can compile very large circuits comprised of many modules.
    Downloads: 0 This Week
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  • 24
    SPICE is a 2D in space, 3D in velocity Particle-In-Cell code intended to simulate plasma-wall interaction.
    Downloads: 0 This Week
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  • 25
    4-Dimensional Cell Simulator (4DiCeS) is a framework on hybrid (stochastic and deterministic) modeling and simulation of (whole) cell environments in 4D. The framework may incorporate any reaction and diffusion algorithms applicable in a 4D grid layout.
    Downloads: 0 This Week
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