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Efficiently Calculating Anharmonic Frequencies of Molecular Vibration by Molecular Dynamics Trajectory Analysis
[Image: see text] Two efficient methods, the Eckart frame algorithm and the multiorder derivative algorithm, for vibrational frequency calculation directly based on the raw data of atomic trajectory from the state-of-the-art first-principles molecular dynamics simulation are presented. The Eckart fr...
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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American Chemical Society
2019
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6648323/ https://www.ncbi.nlm.nih.gov/pubmed/31460016 http://dx.doi.org/10.1021/acsomega.8b03364 |
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author | Wang, Shaoqing |
author_facet | Wang, Shaoqing |
author_sort | Wang, Shaoqing |
collection | PubMed |
description | [Image: see text] Two efficient methods, the Eckart frame algorithm and the multiorder derivative algorithm, for vibrational frequency calculation directly based on the raw data of atomic trajectory from the state-of-the-art first-principles molecular dynamics simulation are presented. The Eckart frame approach is robust to retrieve the full set of anharmonic fundamental frequencies of any molecule from the atomic trajectory for a sufficiently long molecular dynamics simulation at a temperature close to 0 K. In addition to the fundamental vibrational frequencies, the multiorder derivative approach is universal for the calculations of vibrational frequencies based on the molecular dynamics result in a wide range of temperatures. The accuracy, efficiency, and applicability of these two methods are demonstrated through several successful examples in calculating the anharmonic fundamental vibrational frequencies of methane, ethylene, water, and cyclobutadiene. |
format | Online Article Text |
id | pubmed-6648323 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | American Chemical Society |
record_format | MEDLINE/PubMed |
spelling | pubmed-66483232019-08-27 Efficiently Calculating Anharmonic Frequencies of Molecular Vibration by Molecular Dynamics Trajectory Analysis Wang, Shaoqing ACS Omega [Image: see text] Two efficient methods, the Eckart frame algorithm and the multiorder derivative algorithm, for vibrational frequency calculation directly based on the raw data of atomic trajectory from the state-of-the-art first-principles molecular dynamics simulation are presented. The Eckart frame approach is robust to retrieve the full set of anharmonic fundamental frequencies of any molecule from the atomic trajectory for a sufficiently long molecular dynamics simulation at a temperature close to 0 K. In addition to the fundamental vibrational frequencies, the multiorder derivative approach is universal for the calculations of vibrational frequencies based on the molecular dynamics result in a wide range of temperatures. The accuracy, efficiency, and applicability of these two methods are demonstrated through several successful examples in calculating the anharmonic fundamental vibrational frequencies of methane, ethylene, water, and cyclobutadiene. American Chemical Society 2019-05-28 /pmc/articles/PMC6648323/ /pubmed/31460016 http://dx.doi.org/10.1021/acsomega.8b03364 Text en Copyright © 2019 American Chemical Society This is an open access article published under an ACS AuthorChoice License (http://pubs.acs.org/page/policy/authorchoice_termsofuse.html) , which permits copying and redistribution of the article or any adaptations for non-commercial purposes. |
spellingShingle | Wang, Shaoqing Efficiently Calculating Anharmonic Frequencies of Molecular Vibration by Molecular Dynamics Trajectory Analysis |
title | Efficiently Calculating Anharmonic Frequencies of
Molecular Vibration by Molecular Dynamics Trajectory Analysis |
title_full | Efficiently Calculating Anharmonic Frequencies of
Molecular Vibration by Molecular Dynamics Trajectory Analysis |
title_fullStr | Efficiently Calculating Anharmonic Frequencies of
Molecular Vibration by Molecular Dynamics Trajectory Analysis |
title_full_unstemmed | Efficiently Calculating Anharmonic Frequencies of
Molecular Vibration by Molecular Dynamics Trajectory Analysis |
title_short | Efficiently Calculating Anharmonic Frequencies of
Molecular Vibration by Molecular Dynamics Trajectory Analysis |
title_sort | efficiently calculating anharmonic frequencies of
molecular vibration by molecular dynamics trajectory analysis |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6648323/ https://www.ncbi.nlm.nih.gov/pubmed/31460016 http://dx.doi.org/10.1021/acsomega.8b03364 |
work_keys_str_mv | AT wangshaoqing efficientlycalculatinganharmonicfrequenciesofmolecularvibrationbymoleculardynamicstrajectoryanalysis |