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A Global Optimizer for Nanoclusters

We have developed an algorithm to automatically build the global minimum and other low-energy minima of nanoclusters. This method is implemented in PyAR (https://github.com/anooplab/pyar) program. The global optimization in PyAR involves two parts, generation of several trial geometries and gradient...

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Autores principales: Khatun, Maya, Majumdar, Rajat Shubhro, Anoop, Anakuthil
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6776882/
https://www.ncbi.nlm.nih.gov/pubmed/31612127
http://dx.doi.org/10.3389/fchem.2019.00644
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author Khatun, Maya
Majumdar, Rajat Shubhro
Anoop, Anakuthil
author_facet Khatun, Maya
Majumdar, Rajat Shubhro
Anoop, Anakuthil
author_sort Khatun, Maya
collection PubMed
description We have developed an algorithm to automatically build the global minimum and other low-energy minima of nanoclusters. This method is implemented in PyAR (https://github.com/anooplab/pyar) program. The global optimization in PyAR involves two parts, generation of several trial geometries and gradient-based local optimization of the trial geometries. While generating the trial geometries, a Tabu list is used for storing the information of the already used trial geometries to avoid using the similar trial geometries. In this recursive algorithm, an n-sized cluster is built from the geometries of n−1 clusters. The overall procedure automatically generates many unique minimum energy geometries of clusters with size from 2 up to n using this evolutionary growth strategy. We have used our strategy on some of the well-studied clusters such as Pd, Pt, Au, and Al homometallic clusters, Ru-Pt and Au-Pt binary clusters, and Ag-Au-Pt ternary cluster. We have analyzed some of the popular parameters to characterize the clusters, such as relative energy, singlet-triplet energy difference, binding energy, second-order energy difference, and mixing energy, and compared with the reported properties.
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spelling pubmed-67768822019-10-14 A Global Optimizer for Nanoclusters Khatun, Maya Majumdar, Rajat Shubhro Anoop, Anakuthil Front Chem Chemistry We have developed an algorithm to automatically build the global minimum and other low-energy minima of nanoclusters. This method is implemented in PyAR (https://github.com/anooplab/pyar) program. The global optimization in PyAR involves two parts, generation of several trial geometries and gradient-based local optimization of the trial geometries. While generating the trial geometries, a Tabu list is used for storing the information of the already used trial geometries to avoid using the similar trial geometries. In this recursive algorithm, an n-sized cluster is built from the geometries of n−1 clusters. The overall procedure automatically generates many unique minimum energy geometries of clusters with size from 2 up to n using this evolutionary growth strategy. We have used our strategy on some of the well-studied clusters such as Pd, Pt, Au, and Al homometallic clusters, Ru-Pt and Au-Pt binary clusters, and Ag-Au-Pt ternary cluster. We have analyzed some of the popular parameters to characterize the clusters, such as relative energy, singlet-triplet energy difference, binding energy, second-order energy difference, and mixing energy, and compared with the reported properties. Frontiers Media S.A. 2019-09-27 /pmc/articles/PMC6776882/ /pubmed/31612127 http://dx.doi.org/10.3389/fchem.2019.00644 Text en Copyright © 2019 Khatun, Majumdar and Anoop. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Chemistry
Khatun, Maya
Majumdar, Rajat Shubhro
Anoop, Anakuthil
A Global Optimizer for Nanoclusters
title A Global Optimizer for Nanoclusters
title_full A Global Optimizer for Nanoclusters
title_fullStr A Global Optimizer for Nanoclusters
title_full_unstemmed A Global Optimizer for Nanoclusters
title_short A Global Optimizer for Nanoclusters
title_sort global optimizer for nanoclusters
topic Chemistry
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6776882/
https://www.ncbi.nlm.nih.gov/pubmed/31612127
http://dx.doi.org/10.3389/fchem.2019.00644
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