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MDynaMix

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Development status
  
Active

Written in
  
Fortran 77-90

MDynaMix

Original author(s)
  
Aatto Laaksonen, Alexander Lyubartsev

Developer(s)
  
Stockholm University, Department of Materials and Environmental Chemistry, Division of Physical Chemistry

Initial release
  
1993; 24 years ago (1993)

Stable release
  
5.2.7 / 31 January 2015; 2 years ago (2015-01-31)

Molecular Dynamics of Mixtures (MDynaMix) is a computer software package for general purpose molecular dynamics to simulate mixtures of molecules, interacting by AMBER- and CHARMM-like force fields in periodic boundary conditions. Algorithms are included for NVE, NVT, NPT, anisotropic NPT ensembles, and Ewald summation to treat electrostatic interactions. The code was written in a mix of Fortran 77 and 90 (with Message Passing Interface (MPI) for parallel execution). The package runs on Unix and Unix-like (Linux) workstations, clusters of workstations, and on Windows in sequential mode.

Contents

MDynaMix is developed at the Division of Physical Chemistry, Department of Materials and Environmental Chemistry, Stockholm University, Sweden. It is released as open-source software under a GNU General Public License (GPL).

Programs

  • md is the main MDynaMix block
  • makemol is a utility which provides help to create files describing molecular structure and the force field
  • tranal is a suite of utilities to analyze trajectories
  • mdee is a version of the program which implements expanded ensemble method to compute free energy and chemical potential (is not parallelized)
  • mge provides a graphical user interface to construct molecular models and monitor dynamics process
  • Field of application

  • Thermodynamic properties of liquids
  • Nucleic acid - ions interaction
  • Modeling of lipid bilayers
  • Polyelectrolytes
  • Ionic liquids
  • X-ray spectra of liquid water
  • Force Field development
  • References

    MDynaMix Wikipedia