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rna-tools.online: a Swiss army knife for RNA 3D structure modeling workflow

Significant improvements have been made in the efficiency and accuracy of RNA 3D structure prediction methods in recent years; however, many tools developed in the field stay exclusive to only a few bioinformatic groups. To perform a complete RNA 3D structure modeling analysis as proposed by the RNA...

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Detalles Bibliográficos
Autor principal: Magnus, Marcin
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9252763/
https://www.ncbi.nlm.nih.gov/pubmed/35580057
http://dx.doi.org/10.1093/nar/gkac372
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author Magnus, Marcin
author_facet Magnus, Marcin
author_sort Magnus, Marcin
collection PubMed
description Significant improvements have been made in the efficiency and accuracy of RNA 3D structure prediction methods in recent years; however, many tools developed in the field stay exclusive to only a few bioinformatic groups. To perform a complete RNA 3D structure modeling analysis as proposed by the RNA-Puzzles community, researchers must familiarize themselves with a quite complex set of tools. In order to facilitate the processing of RNA sequences and structures, we previously developed the rna-tools package. However, using rna-tools requires the installation of a mixture of libraries and tools, basic knowledge of the command line and the Python programming language. To provide an opportunity for the broader community of biologists to take advantage of the new developments in RNA structural biology, we developed rna-tools.online. The web server provides a user-friendly platform to perform many standard analyses required for the typical modeling workflow: 3D structure manipulation and editing, structure minimization, structure analysis, quality assessment, and comparison. rna-tools.online supports biologists to start benefiting from the maturing field of RNA 3D structural bioinformatics and can be used for educational purposes. The web server is available at https://rna-tools.online.
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spelling pubmed-92527632022-07-05 rna-tools.online: a Swiss army knife for RNA 3D structure modeling workflow Magnus, Marcin Nucleic Acids Res Web Server Issue Significant improvements have been made in the efficiency and accuracy of RNA 3D structure prediction methods in recent years; however, many tools developed in the field stay exclusive to only a few bioinformatic groups. To perform a complete RNA 3D structure modeling analysis as proposed by the RNA-Puzzles community, researchers must familiarize themselves with a quite complex set of tools. In order to facilitate the processing of RNA sequences and structures, we previously developed the rna-tools package. However, using rna-tools requires the installation of a mixture of libraries and tools, basic knowledge of the command line and the Python programming language. To provide an opportunity for the broader community of biologists to take advantage of the new developments in RNA structural biology, we developed rna-tools.online. The web server provides a user-friendly platform to perform many standard analyses required for the typical modeling workflow: 3D structure manipulation and editing, structure minimization, structure analysis, quality assessment, and comparison. rna-tools.online supports biologists to start benefiting from the maturing field of RNA 3D structural bioinformatics and can be used for educational purposes. The web server is available at https://rna-tools.online. Oxford University Press 2022-05-17 /pmc/articles/PMC9252763/ /pubmed/35580057 http://dx.doi.org/10.1093/nar/gkac372 Text en © The Author(s) 2022. Published by Oxford University Press on behalf of Nucleic Acids Research. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Web Server Issue
Magnus, Marcin
rna-tools.online: a Swiss army knife for RNA 3D structure modeling workflow
title rna-tools.online: a Swiss army knife for RNA 3D structure modeling workflow
title_full rna-tools.online: a Swiss army knife for RNA 3D structure modeling workflow
title_fullStr rna-tools.online: a Swiss army knife for RNA 3D structure modeling workflow
title_full_unstemmed rna-tools.online: a Swiss army knife for RNA 3D structure modeling workflow
title_short rna-tools.online: a Swiss army knife for RNA 3D structure modeling workflow
title_sort rna-tools.online: a swiss army knife for rna 3d structure modeling workflow
topic Web Server Issue
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9252763/
https://www.ncbi.nlm.nih.gov/pubmed/35580057
http://dx.doi.org/10.1093/nar/gkac372
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