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fromage: A library for the study of molecular crystal excited states at the aggregate scale
The study of photoexcitations in molecular aggregates faces the twofold problem of the increased computational cost associated with excited states and the complexity of the interactions among the constituent monomers. A mechanistic investigation of these processes requires the analysis of the interm...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley & Sons, Inc.
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7079081/ https://www.ncbi.nlm.nih.gov/pubmed/31909830 http://dx.doi.org/10.1002/jcc.26144 |
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author | Rivera, Miguel Dommett, Michael Sidat, Amir Rahim, Warda Crespo‐Otero, Rachel |
author_facet | Rivera, Miguel Dommett, Michael Sidat, Amir Rahim, Warda Crespo‐Otero, Rachel |
author_sort | Rivera, Miguel |
collection | PubMed |
description | The study of photoexcitations in molecular aggregates faces the twofold problem of the increased computational cost associated with excited states and the complexity of the interactions among the constituent monomers. A mechanistic investigation of these processes requires the analysis of the intermolecular interactions, the effect of the environment, and 3D arrangements or crystal packing on the excited states. A considerable number of techniques have been tailored to navigate these obstacles; however, they are usually restricted to in‐house codes and thus require a disproportionate effort to adopt by researchers approaching the field. Herein, we present the FRamewOrk for Molecular AGgregate Excitations (fromage), which implements a collection of such techniques in a Python library complemented with ready‐to‐use scripts. The program structure is presented and the principal features available to the user are described: geometrical analysis, exciton characterization, and a variety of ONIOM schemes. Each is illustrated by examples of diverse organic molecules in condensed phase settings. The program is available at https://github.com/Crespo-Otero-group/fromage. |
format | Online Article Text |
id | pubmed-7079081 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | John Wiley & Sons, Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-70790812020-03-19 fromage: A library for the study of molecular crystal excited states at the aggregate scale Rivera, Miguel Dommett, Michael Sidat, Amir Rahim, Warda Crespo‐Otero, Rachel J Comput Chem Software News and Updates The study of photoexcitations in molecular aggregates faces the twofold problem of the increased computational cost associated with excited states and the complexity of the interactions among the constituent monomers. A mechanistic investigation of these processes requires the analysis of the intermolecular interactions, the effect of the environment, and 3D arrangements or crystal packing on the excited states. A considerable number of techniques have been tailored to navigate these obstacles; however, they are usually restricted to in‐house codes and thus require a disproportionate effort to adopt by researchers approaching the field. Herein, we present the FRamewOrk for Molecular AGgregate Excitations (fromage), which implements a collection of such techniques in a Python library complemented with ready‐to‐use scripts. The program structure is presented and the principal features available to the user are described: geometrical analysis, exciton characterization, and a variety of ONIOM schemes. Each is illustrated by examples of diverse organic molecules in condensed phase settings. The program is available at https://github.com/Crespo-Otero-group/fromage. John Wiley & Sons, Inc. 2020-01-07 2020-04-15 /pmc/articles/PMC7079081/ /pubmed/31909830 http://dx.doi.org/10.1002/jcc.26144 Text en © 2020 The Authors. Journal of Computational Chemistry published by Wiley Periodicals, Inc. This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Software News and Updates Rivera, Miguel Dommett, Michael Sidat, Amir Rahim, Warda Crespo‐Otero, Rachel fromage: A library for the study of molecular crystal excited states at the aggregate scale |
title |
fromage: A library for the study of molecular crystal excited states at the aggregate scale |
title_full |
fromage: A library for the study of molecular crystal excited states at the aggregate scale |
title_fullStr |
fromage: A library for the study of molecular crystal excited states at the aggregate scale |
title_full_unstemmed |
fromage: A library for the study of molecular crystal excited states at the aggregate scale |
title_short |
fromage: A library for the study of molecular crystal excited states at the aggregate scale |
title_sort | fromage: a library for the study of molecular crystal excited states at the aggregate scale |
topic | Software News and Updates |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7079081/ https://www.ncbi.nlm.nih.gov/pubmed/31909830 http://dx.doi.org/10.1002/jcc.26144 |
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