BioExcel Building Blocks REST API (BioBB REST API), programmatic access to interoperable biomolecular simulation tools

The BioExcel Building Blocks (BioBB) library offers a broad collection of wrappers on top of common biomolecular simulation and bioinformatics tools. The possibility to access the library remotely and programmatically increases its usability, allowing individual and sporadic executions and enabling...

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Detalhes bibliográficos
Autores: Bayarri, Genís, Andrio, Pau, Hospital, Adam, Orozco López, Modesto, Gelpí, Josep Lluís
Tipo de documento: artigo
Estado:Versão publicada
Data de publicação:2022
País:España
Recursos:Universidad de Barcelona
Repositório:Dipòsit Digital de la UB
OAI Identifier:oai:diposit.ub.edu:2445/185898
Acesso em linha:https://hdl.handle.net/2445/185898
Access Level:Acceso aberto
Palavra-chave:Bioinformàtica
Simulació per ordinador
Bioinformatics
Computer simulation
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spelling BioExcel Building Blocks REST API (BioBB REST API), programmatic access to interoperable biomolecular simulation toolsBayarri, GenísAndrio, PauHospital, AdamOrozco López, ModestoGelpí, Josep LluísBioinformàticaSimulació per ordinadorBioinformaticsComputer simulationThe BioExcel Building Blocks (BioBB) library offers a broad collection of wrappers on top of common biomolecular simulation and bioinformatics tools. The possibility to access the library remotely and programmatically increases its usability, allowing individual and sporadic executions and enabling remote workflows.BioBB REST API extends and complements the BioBB library offering programmatic access to the collection of biomolecular simulation tools included in the BioExcel Building Blocks library. Molecular Dynamics setup, docking, structure modeling, free energy simulations, and flexibility analyses are examples of functionalities included in the endpoints collection. All functionalities are accessible through standard REST API calls, voiding the need for tool installation.All the information related to the BioBB REST API endpoints is accessible from https://mmb.irbbarcelona.org/biobb-api/. Links to extended documentation, including OpenAPI endpoints specification and examples, Read-The-Docs documentation and a complete workflow tutorial can be found in the Suppl. Table 1.Oxford University Press2022info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionapplication/pdfhttps://hdl.handle.net/2445/185898Articles publicats en revistes (Bioquímica i Biomedicina Molecular)reponame:Dipòsit Digital de la UBinstname:Universidad de BarcelonaInglésReproducció del document publicat a: https://doi.org/10.1093/bioinformatics/btac316Bioinformatics, 2022https://doi.org/10.1093/bioinformatics/btac316info:eu-repo/grantAgreement/EC/H2020/823830(c) Bayarri, Genís et al., 2022info:eu-repo/semantics/openAccessoai:diposit.ub.edu:2445/1858982026-05-27T06:46:51Z
dc.title.none.fl_str_mv BioExcel Building Blocks REST API (BioBB REST API), programmatic access to interoperable biomolecular simulation tools
title BioExcel Building Blocks REST API (BioBB REST API), programmatic access to interoperable biomolecular simulation tools
spellingShingle BioExcel Building Blocks REST API (BioBB REST API), programmatic access to interoperable biomolecular simulation tools
Bayarri, Genís
Bioinformàtica
Simulació per ordinador
Bioinformatics
Computer simulation
title_short BioExcel Building Blocks REST API (BioBB REST API), programmatic access to interoperable biomolecular simulation tools
title_full BioExcel Building Blocks REST API (BioBB REST API), programmatic access to interoperable biomolecular simulation tools
title_fullStr BioExcel Building Blocks REST API (BioBB REST API), programmatic access to interoperable biomolecular simulation tools
title_full_unstemmed BioExcel Building Blocks REST API (BioBB REST API), programmatic access to interoperable biomolecular simulation tools
title_sort BioExcel Building Blocks REST API (BioBB REST API), programmatic access to interoperable biomolecular simulation tools
dc.creator.none.fl_str_mv Bayarri, Genís
Andrio, Pau
Hospital, Adam
Orozco López, Modesto
Gelpí, Josep Lluís
author Bayarri, Genís
author_facet Bayarri, Genís
Andrio, Pau
Hospital, Adam
Orozco López, Modesto
Gelpí, Josep Lluís
author_role author
author2 Andrio, Pau
Hospital, Adam
Orozco López, Modesto
Gelpí, Josep Lluís
author2_role author
author
author
author
dc.subject.none.fl_str_mv Bioinformàtica
Simulació per ordinador
Bioinformatics
Computer simulation
topic Bioinformàtica
Simulació per ordinador
Bioinformatics
Computer simulation
description The BioExcel Building Blocks (BioBB) library offers a broad collection of wrappers on top of common biomolecular simulation and bioinformatics tools. The possibility to access the library remotely and programmatically increases its usability, allowing individual and sporadic executions and enabling remote workflows.BioBB REST API extends and complements the BioBB library offering programmatic access to the collection of biomolecular simulation tools included in the BioExcel Building Blocks library. Molecular Dynamics setup, docking, structure modeling, free energy simulations, and flexibility analyses are examples of functionalities included in the endpoints collection. All functionalities are accessible through standard REST API calls, voiding the need for tool installation.All the information related to the BioBB REST API endpoints is accessible from https://mmb.irbbarcelona.org/biobb-api/. Links to extended documentation, including OpenAPI endpoints specification and examples, Read-The-Docs documentation and a complete workflow tutorial can be found in the Suppl. Table 1.
publishDate 2022
dc.date.none.fl_str_mv 2022
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv https://hdl.handle.net/2445/185898
url https://hdl.handle.net/2445/185898
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Reproducció del document publicat a: https://doi.org/10.1093/bioinformatics/btac316
Bioinformatics, 2022
https://doi.org/10.1093/bioinformatics/btac316
info:eu-repo/grantAgreement/EC/H2020/823830
dc.rights.none.fl_str_mv (c) Bayarri, Genís et al., 2022
info:eu-repo/semantics/openAccess
rights_invalid_str_mv (c) Bayarri, Genís et al., 2022
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv Oxford University Press
publisher.none.fl_str_mv Oxford University Press
dc.source.none.fl_str_mv Articles publicats en revistes (Bioquímica i Biomedicina Molecular)
reponame:Dipòsit Digital de la UB
instname:Universidad de Barcelona
instname_str Universidad de Barcelona
reponame_str Dipòsit Digital de la UB
collection Dipòsit Digital de la UB
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15.300724

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