Search Results for "command line tools" - Page 3
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Showing 81 open source projects for "command line tools"
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ByoDyn (http://cbbl.imim.es/ByoDyn) is a software tool for the study of biochemical networks within the framework of systems biology. SBML compatible, ByoDyn is a group effort of the Computational Biochemistry and Biophysics Lab.
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Plouf is a set of algorithms that solve partial differential equations on sets of connected points. Emphasis is on fluid mechanics and plasma flows.
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FAUNUS is an object oriented class library for molecular simulation, written in C++. It contains routines and utility programs for, Metropolis Monte Carlo sampling (NVT, NPT, NmuT ensembles), Macromolecules, Proton Titration, Widom Analysis etc.
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IFoam is an OpenFOAM derived framework. It uses Python programming language for definition of its API. Itegrates visual components for limited post-processing. Provides access to some GUI components for more efficient set up the simulation cases.
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Guanxi is a robust analysis and simulation application for Social Network Analysts. Guanxi allows researchers in the field to create, import, and export an endless array of networks, analyze their structure, and run custom dynamics over them.
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Translates OpenFOAM (Open Source CFD Toolbox, see http://sourceforge.net/projects/foam) data into MED format (see http://www.code-aster.org/outils/med). The initial goal to develop this utility was to be able integrate OpenFOAM functionality with SALOME
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BARNACLE is a Python library for RNA 3D structure prediction. It can be used for probabilistic sampling of RNA structures that are compatible with a given nucleotide sequence and that are RNA like on a local length scale.
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The aim of project is creating program environment for solving some integral equations, arising at solving mathematical problems of the diffraction theory.
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Spasmos is a Python package that allows scientists to simulate the dynamics of highly collisional plasmas using a number of numerical methods.
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"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.
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This is the first force-matching software published with the ability to do general coarse-graining for molecular systems.
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Henry is an interface for Taylor 1.4.3 package (A. Jorba & M. Zou) and was written for master thesis to compute N-body problems (in Poincare variables) and MEGNO stability factor. Work is supported by Krzysztof Gozdziewski.
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QMcBeaver is an object-oriented program to perform Quantum Monte Carlo calculations on atoms and molecules. It is designed to be easy to modify, allowing new ideas to be quickly implemented.
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PetriKit is a modular toolkit for Petri Net analysis. It allows the extraction of basic properties, extraction of invariants, and generation of reachability graph. Results can be formatted in plain text, HTML or XML files.
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The Automatic Model Optimization Reference Implementation, AMORI, is a framework that integrates the modelling and the optimization processes by providing a plug-in interface for both. A genetic algorithm and Markov simulations are currently implemented.
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This project is A Mitochondrial OxydoReduction Simulation System. It consists of two linked projects: a program for displaying and analysing large biomolecular systems (Floral) and a multi-agent simulator for biomolecular oxydoreduction systems (AMORSS).
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TAROT is a easy-to-use framework for Monte Carlo simulations in python. Calculations between different kinds of randomly distributed numbers are made as easy as basic arithmetics. Tarot provides an interactive graphical interface for interpretation.
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Slowmo is an application developed to calculate and plot the travel times of the wave front of a tsunami.
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Poor Man's HPC is a framework that allows distributing and running code on a server farm. pmHPC is a scaled down and simplified version of distributed computing projects such as SETI, so is a perfect fit for enthusiasts and universities.
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BrennerMD is a public domain Fortran molecular dynamics program by Donald Brenner and other people. This project is to maintain the original source code and to build a Python interface on top of it.
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Esra is a 100% pure java library for the interactive analysis of molecular mechanics data. Mangles your data in your favorite scripting language.
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A package for preference handling and aggregation rules. A number of voting rules discussed in social choice literature have been implemented in order to study various properties of these rules in simulations with randomly generated preferences.
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MANIKK is a toolkit for generating numerical interaction parameters -- describing the interaction between metallic atoms in a coherent lattice -- and for performing numerical Monte Carlo-simulations of physical properties of alloy systems.
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We experiment with Evolution of Artifical Neural Networks, combining the two fields of Evolutionary Computation and ANNs. Our methods are applied to a variety of interesting problems. To learn more, click on "Home Page", "Mail", or "Files".
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