We present a new approach in order to improve the convergence of Monte Carlo (MC) simulations of molecular systems belonging to complex energetic landscapes: the problem is redefined in terms of the dynamic allocation of MC move frequencies depending on their past efficiency, measured with respect to a relevant sampling criterion. We introduce various empirical criteria with the aim of accounting for the proper convergence in phase space sampling. The dynamic allocation is performed over parallel simulations by means of a new evolutionary algorithm involving ‘immortal ’ individuals. The method is bench marked with respect to conventional procedures on a model for melt linear polyethylene. We record significant improvement in sampling effici...
Molecular dynamics simulations can give atomistic insight into chemical systems and processes. Howev...
Although Markov chain Monte Carlo (MC) simulation is a potentially powerful approach for exploring c...
Molecular Dynamics simulations are a powerful approach to study biomolecular conformational changes ...
We present a new approach to perform molecular sim-ulations using evolutionary algorithms. The main ...
I will present some numerical challenges raised by the simulation of materials at the atomistic leve...
Le domaine de la simulation moléculaire a pour but de simuler un ensemble de particules en interacti...
51 pages, 5 figuresInternational audienceEnhanced sampling algorithms have emerged as powerful metho...
International audienceThe purpose of the present article is to compare different phase-space samplin...
The purpose of the present article is to compare different phase-space sampling methods, such as pu...
Efficient sampling is the key to success of molecular simulation of complex physical systems. Still,...
The modified Hamiltonian Monte Carlo (MHMC) methods, i.e., importance sampling methods that use modi...
The Markov chain Monte Carlo method is an important tool to estimate the average properties of syste...
BACKGROUND For biomacromolecules or their assemblies, experimental knowledge is often restricted to...
A multiscale, modular approach to protein sampling with novel Monte Carlo algorithms is is presented...
In this paper various extensions of the parallel-tempering algorithm are developed and their propert...
Molecular dynamics simulations can give atomistic insight into chemical systems and processes. Howev...
Although Markov chain Monte Carlo (MC) simulation is a potentially powerful approach for exploring c...
Molecular Dynamics simulations are a powerful approach to study biomolecular conformational changes ...
We present a new approach to perform molecular sim-ulations using evolutionary algorithms. The main ...
I will present some numerical challenges raised by the simulation of materials at the atomistic leve...
Le domaine de la simulation moléculaire a pour but de simuler un ensemble de particules en interacti...
51 pages, 5 figuresInternational audienceEnhanced sampling algorithms have emerged as powerful metho...
International audienceThe purpose of the present article is to compare different phase-space samplin...
The purpose of the present article is to compare different phase-space sampling methods, such as pu...
Efficient sampling is the key to success of molecular simulation of complex physical systems. Still,...
The modified Hamiltonian Monte Carlo (MHMC) methods, i.e., importance sampling methods that use modi...
The Markov chain Monte Carlo method is an important tool to estimate the average properties of syste...
BACKGROUND For biomacromolecules or their assemblies, experimental knowledge is often restricted to...
A multiscale, modular approach to protein sampling with novel Monte Carlo algorithms is is presented...
In this paper various extensions of the parallel-tempering algorithm are developed and their propert...
Molecular dynamics simulations can give atomistic insight into chemical systems and processes. Howev...
Although Markov chain Monte Carlo (MC) simulation is a potentially powerful approach for exploring c...
Molecular Dynamics simulations are a powerful approach to study biomolecular conformational changes ...