Constant pressure and temperature discrete-time Langevin molecular dynamics.
@article{GrnbechJensen2014ConstantPA, title={Constant pressure and temperature discrete-time Langevin molecular dynamics.}, author={Niels Gr{\o}nbech-Jensen and Oded Farago}, journal={The Journal of chemical physics}, year={2014}, volume={141 19}, pages={ 194108 } }
We present a new and improved method for simultaneous control of temperature and pressure in molecular dynamics simulations with periodic boundary conditions. The thermostat-barostat equations are built on our previously developed stochastic thermostat, which has been shown to provide correct statistical configurational sampling for any time step that yields stable trajectories. Here, we extend the method and develop a set of discrete-time equations of motion for both particle dynamics and…
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48 References
Molecular dynamics simulations at constant pressure and/or temperature
- Physics
- 1980
In the molecular dynamics simulation method for fluids, the equations of motion for a collection of particles in a fixed volume are solved numerically. The energy, volume, and number of particles are…
Constant pressure molecular dynamics simulation: The Langevin piston method
- Physics
- 1995
A new method for performing molecular dynamics simulations under constant pressure is presented. In the method, which is based on the extended system formalism introduced by Andersen, the…
Optimized Constant Pressure Stochastic Dynamics
- Physics
- 1999
A recently proposed method for computer simulations in the isothermal–isobaric (NPT) ensemble, based on Langevin-type equations of motion for the particle coordinates and the “piston” degree of…
Canonical dynamics: Equilibrium phase-space distributions.
- PhysicsPhysical review. A, General physics
- 1985
The dynamical steady-state probability density is found in an extended phase space with variables x, p/sub x/, V, epsilon-dot, and zeta, where the x are reduced distances and the two variables epsilus-dot andZeta act as thermodynamic friction coefficients.
A simple and effective Verlet-type algorithm for simulating Langevin dynamics
- Computer Science
- 2012
The revision addresses the inclusion of linear friction with associated stochastic noise, and it is demonstrated that the new algorithm correctly reproduces diffusive behaviour of a particle in a flat potential.
Molecular dynamics with coupling to an external bath
- Physics
- 1984
In molecular dynamics (MD) simulations the need often arises to maintain such parameters as temperature or pressure rather than energy and volume, or to impose gradients for studying transport…
Application of the G-JF discrete-time thermostat for fast and accurate molecular simulations
- EngineeringComput. Phys. Commun.
- 2014
A Liouville-operator derived measure-preserving integrator for molecular dynamics simulations in the isothermal?isobaric ensemble
- Physics
- 2006
The constant-pressure, constant-temperature (NPT) molecular dynamics approach is re-examined from the viewpoint of deriving a new measure-preserving reversible geometric integrator for the equations…
A unified formulation of the constant temperature molecular dynamics methods
- Physics, Chemistry
- 1984
Three recently proposed constant temperature molecular dynamics methods by: (i) Nose (Mol. Phys., to be published); (ii) Hoover et al. [Phys. Rev. Lett. 48, 1818 (1982)], and Evans and Morriss [Chem.…