Search Results for "simulations" - Page 3
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Showing 177 open source projects for "simulations"
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IPS Framework
A simple Python framework for loosely-coupled multiphysics simulations
...One of the novel features of the IPS framework is its ability to support parallelism at multiple levels: components can launch individual parallel tasks, and also launch multiple tasks concurrently. The framework can execute multiple components concurrently, and even multiple simulations, all within the same pool of compute nodes. -
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MEMBPLUGIN
MEMBPLUGIN: studying membrane complexity in VMD
MEMBPLUGIN is a membrane analysis tool for molecular-dynamics simulations. It is a collection of visual and command-line tools that can be run within the Visual Molecular Dynamics (VMD) environment to analyze biomolecular simulations of lipid bilayers. -
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Acoustic Research Tool (ART)
Acoustic Simulation Library for Frequency and Time Domain Simulations.
ART is a flexible simulation framework for wind instruments. It includes a growing library of modelling elements. So far bore discontinuities, branches, tone holes, cylindrical and conical tubes, Bessel horns and bent tubes are available for frequency domain modelling. In the time domain generic bidirectional propagation elements, scattering elements, fractional delays, convolution with reflection functions and general z-domain networks are available and can be described using MuParserX... -
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MED-FOES
An Agent-Based Simulation of Invasive Pest Insects
...Thus the objective of this software is to estimate the time to local extirpation based on known ranges of developmental, survivorship and reproductive parameters, as well as assumed ranges of an eradication pressure parameter. For a complete analysis and estimate of time to extirpation one would execute a large number of individual simulations evenly distributed over parameter space to estimate the time at which an arbitrary percentage of the simulations show extirpation. -
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BioFVM
3-D diffusion solver for biological problems
...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 -
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Spark is a physical simulation system. The primary purpose of this system is to provide a *generic* simulator for different kinds of simulations. In these simulations, agents can participate as external processes.
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MuPIF
Multi-Physics Integration Framework (MuPIF)
Multi-Physics Integration Framework (MuPIF) is an integration framework, that will facilitate the implementation of multi-physic and multi-level simulations, built from independently developed components. The principal role of the framework is to steer individual components (applications) and to provide high-level data-exchange services. Each application should implement an interface that allows to steer application and execute data requests. The design supports various coupling strategies, discretization techniques, and also the distributed applications. ... -
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JBioFramework
Growing suite of proteomics simulations for educational purposes
JBioFramework (JBF) is a set of two different chemical separations simulations (2D Electrophoresis and Mass Spectrometry) that are frequently used in chemistry, biochemistry and proteomics research. It is written in the Java programming language and will run on any and all systems that have the JVM installed. As we continue to develop the software over the coming months/years and attempt to quantify the success of our efforts with testing and reviews, user input is very important. ... -
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Cambridge Rocketry Simulator
Simulate high power rocket flights with splash down plots
This software allows you perform six degree of freedom simulations of High Power Rocket (HPR) and model rocket flights. Parachute descent is also simulated. 3D flight trajectories are produced as well as detailed tabular flight data. Running in Monte Carlo mode allows generates multiple possible flight paths and splash down plots, indicating the probability of landing in an area. Peer-reviewed publication in the Journal of Open Research Software (JORS) http://doi.org/10.5334/jors.137 "Cambridge Rocketry Simulator – A Stochastic Six-Degrees-of-Freedom Rocket Flight Simulator" -
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Molecular Simulation Grid
Provides high performance computing power and state of the art tools
MoSGrid focuses on the configuration and provision of Grid services for molecular simulations and annotation of the results with metadata and their provision for data mining and knowledge generation. It is based on Liferay technology togethe with gUSE. -
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cupSODA
Deterministic simulator of mass-action based models
cupSODA is a simulator of biological systems that exploits the remarkable memory bandwidth and computational capability of GPUs. cupSODA allows to efficiently execute in parallel large numbers of simulations, which are usually required to investigate the emergent dynamics of a given biological system under different conditions. cupSODA works by automatically deriving the system of ordinary differential equations from a reaction-based mechanistic model, defined according to the mass-action kinetics, and then exploiting the numerical integration algorithm, LSODA -
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SAJaS
Simple API for JADE-based Simulations
The Simple API for JADE-based Simulations (SAJaS) is a proposal to bridge the gap between MAS simulation and development. SAJaS enhances MABS frameworks with JADE-based features. While empowering MABS modellers with modelling concepts offered by JADE, SAJaS also promotes a quicker development of simulation models for JADE programmers. In fact, the same implementation can, with minor changes, be used as a large scale simulation or as a distributed JADE system. -
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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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MATSim is a framework for building multi-agent transport simulations. MATSim has moved to GitHub: https://github.com/matsim-org/matsim Source code and newer releases are now hosted at GitHub!
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TraceMetrics
TraceMetrics is a trace file analyzer for Network Simulator 3 (ns-3).
TraceMetrics is a trace file analyzer for Network Simulator 3 (ns-3). The main goal is to perform a quick analyzis of the trace file produced by ns-3's simulations and calculate useful metrics for research and performance measurement. Such tool is needed because a research simulation may generate a trace file with thousands of lines, becoming dificult to analyze manually. Due to this, this tool can be handy in case someone needs a metric that the tool already support. TraceMetrics is an opensource tool, developed in Java and the code can be found here. ... -
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GMES
GMES is a free Python package for FDTD electromagnetic simulations.
GMES is a free finite-difference time-domain (FDTD) simulation Python package developed at GIST to model photonic devices. Its features include simulation in 1D, 2D, and 3D Cartesian coordinates, distributed memory parallelism on any system supporting the MPI standard, portable to any Unix-like system, variuos dispersive ε(ω) models, CPML absorbing boundaries and/or Bloch-periodic boundary conditions, and arbitrary material and source distributions. GMES officially stands for GIST... -
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MF-OWHM | MODFLOW OWHM
Simulation, analysis, and management of the movement of water
...While maintaining compatibility with existing MF versions, MF-OWHM includes: linkages for coupled heads, flows, and deformation; facilitation of self-updating models, additional observation and parameter options for higher-order calibrations; and redesigned code for faster simulations. MF-OWHM represents a complete IHM that fully links the movement and use of groundwater, surface water, and imported water for consumption by agriculture and natural vegetation on the landscape, and for potable and other uses. -
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siccom
Spatial Interaction in Coral Reef Communities
...Several coral species, with either massive or branching colony growth morphologies are implemented as individual colonies, which compete for space with each other as well as with macroalgae and algal turf. For more details on the first version of the program see also: Kubicek A, Muhando C, Reuter H (2012) Simulations of Long-Term Community Dynamics in Coral Reefs - How Perturbations Shape Trajectories. PLoS Comput Biol 8(11): e1002791. doi:10.1371/journal.pcbi.1002791 http://www.ploscompbiol.org/doi/pcbi.1002791 Version 2.0 of the program assesses feedbacks in coral systems and is published in Kubicek A, Reuter H (2016) Mechanics of multiple feedbacks in benthic coral reef communities. ... -
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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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SWIFT
SPH With Inter-dependent Fine-grained Tasking
Shared-Memory Parallel Smoothed Particle Hydrodynamics (SPH) code for large-scale cosmological simulations. -
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JASA allows researchers in agent-based computational economics to write high-performance trading simulations using a number of different auction protocols. The software also provides base classes for implementing simple adaptive trading agents.
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JABM is a Java framework for building agent-based simulation models using a discrete-event simulation framework.
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pyMDMix
Molecular dynamics with aqueous-organic solvent mixtures
This python package aims to help people set up and analyze molecular dynamics simulations in aqueous-organic solvent mixtures. See D. Alvarez-Garcia et al. Journal of Medicinal Chemistry, 2014. -
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NiCE
Modeling and Simulation made NiCE!
...Contact: billingsjj <at> ornl . gov The NEAMS Integrated Computational Environment (NiCE) facilitates the flexible development, composition and use of a wide range of simulations, models and analysis tools for NEAMS integrated performance and safety codes. -
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SFS_CODE (Selection on Finite Sites under COmplex Demographic Events) performs forward population genetic simulations under a general Wright-Fisher model with arbitrary demographic, selective, and mutational effects.