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The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update

Galaxy (https://galaxyproject.org) is a web-based computational workbench used by tens of thousands of scientists across the world to analyze large biomedical datasets. Since 2005, the Galaxy project has fostered a global community focused on achieving accessible, reproducible, and collaborative res...

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Autores principales: Jalili, Vahid, Afgan, Enis, Gu, Qiang, Clements, Dave, Blankenberg, Daniel, Goecks, Jeremy, Taylor, James, Nekrutenko, Anton
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7319590/
https://www.ncbi.nlm.nih.gov/pubmed/32479607
http://dx.doi.org/10.1093/nar/gkaa434
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author Jalili, Vahid
Afgan, Enis
Gu, Qiang
Clements, Dave
Blankenberg, Daniel
Goecks, Jeremy
Taylor, James
Nekrutenko, Anton
author_facet Jalili, Vahid
Afgan, Enis
Gu, Qiang
Clements, Dave
Blankenberg, Daniel
Goecks, Jeremy
Taylor, James
Nekrutenko, Anton
author_sort Jalili, Vahid
collection PubMed
description Galaxy (https://galaxyproject.org) is a web-based computational workbench used by tens of thousands of scientists across the world to analyze large biomedical datasets. Since 2005, the Galaxy project has fostered a global community focused on achieving accessible, reproducible, and collaborative research. Together, this community develops the Galaxy software framework, integrates analysis tools and visualizations into the framework, runs public servers that make Galaxy available via a web browser, performs and publishes analyses using Galaxy, leads bioinformatics workshops that introduce and use Galaxy, and develops interactive training materials for Galaxy. Over the last two years, all aspects of the Galaxy project have grown: code contributions, tools integrated, users, and training materials. Key advances in Galaxy's user interface include enhancements for analyzing large dataset collections as well as interactive tools for exploratory data analysis. Extensions to Galaxy's framework include support for federated identity and access management and increased ability to distribute analysis jobs to remote resources. New community resources include large public servers in Europe and Australia, an increasing number of regional and local Galaxy communities, and substantial growth in the Galaxy Training Network.
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spelling pubmed-73195902020-07-13 The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update Jalili, Vahid Afgan, Enis Gu, Qiang Clements, Dave Blankenberg, Daniel Goecks, Jeremy Taylor, James Nekrutenko, Anton Nucleic Acids Res Web Server Issue Galaxy (https://galaxyproject.org) is a web-based computational workbench used by tens of thousands of scientists across the world to analyze large biomedical datasets. Since 2005, the Galaxy project has fostered a global community focused on achieving accessible, reproducible, and collaborative research. Together, this community develops the Galaxy software framework, integrates analysis tools and visualizations into the framework, runs public servers that make Galaxy available via a web browser, performs and publishes analyses using Galaxy, leads bioinformatics workshops that introduce and use Galaxy, and develops interactive training materials for Galaxy. Over the last two years, all aspects of the Galaxy project have grown: code contributions, tools integrated, users, and training materials. Key advances in Galaxy's user interface include enhancements for analyzing large dataset collections as well as interactive tools for exploratory data analysis. Extensions to Galaxy's framework include support for federated identity and access management and increased ability to distribute analysis jobs to remote resources. New community resources include large public servers in Europe and Australia, an increasing number of regional and local Galaxy communities, and substantial growth in the Galaxy Training Network. Oxford University Press 2020-07-02 2020-06-01 /pmc/articles/PMC7319590/ /pubmed/32479607 http://dx.doi.org/10.1093/nar/gkaa434 Text en © The Author(s) 2020. Published by Oxford University Press on behalf of Nucleic Acids Research. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://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
Jalili, Vahid
Afgan, Enis
Gu, Qiang
Clements, Dave
Blankenberg, Daniel
Goecks, Jeremy
Taylor, James
Nekrutenko, Anton
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update
title The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update
title_full The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update
title_fullStr The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update
title_full_unstemmed The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update
title_short The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update
title_sort galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update
topic Web Server Issue
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7319590/
https://www.ncbi.nlm.nih.gov/pubmed/32479607
http://dx.doi.org/10.1093/nar/gkaa434
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