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Analyzing Melts and Fluids from Ab Initio Molecular Dynamics Simulations with the UMD Package
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Chemistry
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JoVE Journal Chemistry
Analyzing Melts and Fluids from Ab Initio Molecular Dynamics Simulations with the UMD Package

Analyzing Melts and Fluids from Ab Initio Molecular Dynamics Simulations with the UMD Package

DOI:
10.3791/61534-v

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06:37 min

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September 17, 2021

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, , , , ,
1Ecole Normale Supérieure de Lyon, Laboratory of Geology of Lyon UMR5276,CNRS, 2Centre for Earth Evolution and Dynamics (CEED),University of Oslo, 3CEA, DAM, DIF

Chapters

  • 00:05Introduction
  • 00:24Analysis of the Molecular-dynamics Runs
  • 01:15Perform the Structural Analysis
  • 02:05Perform the Speciation Analysis
  • 02:51Compute Diffusion Coefficients
  • 03:27Time Correlation Functions
  • 04:04Thermodynamic Parameters Stemming from the Simulations
  • 04:29Results: Lifetime of the Si-O Chemical Species
  • 05:59Conclusion

Summary

Automatic Translation

Automatic Translation

Melts and fluids are ubiquitous vectors of mass transport in natural systems. We have developed an open-source package to analyze ab initio molecular-dynamics simulations of such systems. We compute structural (bonding, clusterization, chemical speciation), transport (diffusion, viscosity) and thermodynamic properties (vibrational spectrum).

Tags

Keywords: Ab Initio Molecular DynamicsUMD PackagePhysical PropertiesChemical PropertiesFluidsPython ScriptsMD SimulationVASPPair Distribution FunctionInteratomic Bond DistancesCoordination PolyhedraPolymerizationMean Square DisplacementSelf-diffusivityDiffusion Coefficients

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