The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update

The Galaxy Community

doi:10.1093/nar/gkac247

The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update

The Galaxy Community

Research output: Contribution to journal › Article › peer-review

907 Scopus citations

Abstract

Galaxy is a mature, browser accessible workbench for scientific computing. It enables scientists to share, analyze and visualize their own data, with minimal technical impediments. A thriving global community continues to use, maintain and contribute to the project, with support from multiple national infrastructure providers that enable freely accessible analysis and training services. The Galaxy Training Network supports free, self-directed, virtual training with >230 integrated tutorials. Project engagement metrics have continued to grow over the last 2 years, including source code contributions, publications, software packages wrapped as tools, registered users and their daily analysis jobs, and new independent specialized servers. Key Galaxy technical developments include an improved user interface for launching large-scale analyses with many files, interactive tools for exploratory data analysis, and a complete suite of machine learning tools. Important scientific developments enabled by Galaxy include Vertebrate Genome Project (VGP) assembly workflows and global SARS-CoV-2 collaborations.

Original language	English (US)
Pages (from-to)	W345-W351
Journal	Nucleic acids research
Volume	50
Issue number	W1
DOIs	https://doi.org/10.1093/nar/gkac247
State	Published - Jul 5 2022

Bibliographical note

Publisher Copyright:
© 2022 The Author(s). Published by Oxford University Press on behalf of Nucleic Acids Research.

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

SDG 3 Good Health and Well-being

PubMed: MeSH publication types

Journal Article
Research Support, Non-U.S. Gov't
Research Support, N.I.H., Extramural
Research Support, U.S. Gov't, Non-P.H.S.

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10.1093/nar/gkac247

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@article{b236e3e5f83a4f628ded561f668de8c0,

title = "The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update",

abstract = "Galaxy is a mature, browser accessible workbench for scientific computing. It enables scientists to share, analyze and visualize their own data, with minimal technical impediments. A thriving global community continues to use, maintain and contribute to the project, with support from multiple national infrastructure providers that enable freely accessible analysis and training services. The Galaxy Training Network supports free, self-directed, virtual training with >230 integrated tutorials. Project engagement metrics have continued to grow over the last 2 years, including source code contributions, publications, software packages wrapped as tools, registered users and their daily analysis jobs, and new independent specialized servers. Key Galaxy technical developments include an improved user interface for launching large-scale analyses with many files, interactive tools for exploratory data analysis, and a complete suite of machine learning tools. Important scientific developments enabled by Galaxy include Vertebrate Genome Project (VGP) assembly workflows and global SARS-CoV-2 collaborations.",

author = "\{The Galaxy Community\} and Ostrovsky, \{Alexander E.\} and Alexandru Mahmoud and Lonie, \{Andrew J.\} and Anna Syme and Anne Fouilloux and Anthony Bretaudeau and Anton Nekrutenko and Anup Kumar and Eschenlauer, \{Arthur C.\} and DeSanto, \{Assunta D.\} and Aysam Guerler and Beatriz Serrano-Solano and B{\'e}r{\'e}nice Batut and Gr{\"u}ning, \{Bjorn A.\} and Langhorst, \{Bradley W.\} and Bridget Carr and Raubenolt, \{Bryan A.\} and Hyde, \{Cameron J.\} and Bromhead, \{Catherine J.\} and Barnett, \{Christopher B.\} and Coline Royaux and Crist{\'o}bal Gallardo and Daniel Blankenberg and Fornika, \{Daniel J.\} and Dannon Baker and Dave Bouvier and Dave Clements and \{de Lima Morais\}, \{David A.\} and \{Lopez Tabernero\}, David and Delphine Lariviere and Engy Nasr and Enis Afgan and Federico Zambelli and Florian Heyl and Fotis Psomopoulos and Frederik Coppens and Price, \{Gareth R.\} and Gianmauro Cuccuru and \{Le Corguill{\'e}\}, Gildas and Kuster, \{Greg Von\} and Akbulut, \{Gulsum Gudukbay\} and Helena Rasche and Hotz, \{Hans Rudolf\} and Ignacio Eguinoa and Igor Makunin and Ranawaka, \{Isuru J.\} and Taylor, \{James P.\} and Vorderman, \{Ruben H.P.\} and Mehta, \{Subina P.\} and Nagampalli, \{Vijay K.\}",

note = "Publisher Copyright: {\textcopyright} 2022 The Author(s). Published by Oxford University Press on behalf of Nucleic Acids Research.",

year = "2022",

month = jul,

day = "5",

doi = "10.1093/nar/gkac247",

language = "English (US)",

volume = "50",

pages = "W345--W351",

journal = "Nucleic acids research",

issn = "0305-1048",

publisher = "Oxford University Press",

number = "W1",

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T2 - 2022 update

AU - The Galaxy Community

AU - Ostrovsky, Alexander E.

AU - Mahmoud, Alexandru

AU - Lonie, Andrew J.

AU - Syme, Anna

AU - Fouilloux, Anne

AU - Bretaudeau, Anthony

AU - Nekrutenko, Anton

AU - Kumar, Anup

AU - Eschenlauer, Arthur C.

AU - DeSanto, Assunta D.

AU - Guerler, Aysam

AU - Serrano-Solano, Beatriz

AU - Batut, Bérénice

AU - Grüning, Bjorn A.

AU - Langhorst, Bradley W.

AU - Carr, Bridget

AU - Raubenolt, Bryan A.

AU - Hyde, Cameron J.

AU - Bromhead, Catherine J.

AU - Barnett, Christopher B.

AU - Royaux, Coline

AU - Gallardo, Cristóbal

AU - Blankenberg, Daniel

AU - Fornika, Daniel J.

AU - Baker, Dannon

AU - Bouvier, Dave

AU - Clements, Dave

AU - de Lima Morais, David A.

AU - Lopez Tabernero, David

AU - Lariviere, Delphine

AU - Nasr, Engy

AU - Afgan, Enis

AU - Zambelli, Federico

AU - Heyl, Florian

AU - Psomopoulos, Fotis

AU - Coppens, Frederik

AU - Price, Gareth R.

AU - Cuccuru, Gianmauro

AU - Le Corguillé, Gildas

AU - Kuster, Greg Von

AU - Akbulut, Gulsum Gudukbay

AU - Rasche, Helena

AU - Hotz, Hans Rudolf

AU - Eguinoa, Ignacio

AU - Makunin, Igor

AU - Ranawaka, Isuru J.

AU - Taylor, James P.

AU - Vorderman, Ruben H.P.

AU - Mehta, Subina P.

AU - Nagampalli, Vijay K.

PY - 2022/7/5

Y1 - 2022/7/5

N2 - Galaxy is a mature, browser accessible workbench for scientific computing. It enables scientists to share, analyze and visualize their own data, with minimal technical impediments. A thriving global community continues to use, maintain and contribute to the project, with support from multiple national infrastructure providers that enable freely accessible analysis and training services. The Galaxy Training Network supports free, self-directed, virtual training with >230 integrated tutorials. Project engagement metrics have continued to grow over the last 2 years, including source code contributions, publications, software packages wrapped as tools, registered users and their daily analysis jobs, and new independent specialized servers. Key Galaxy technical developments include an improved user interface for launching large-scale analyses with many files, interactive tools for exploratory data analysis, and a complete suite of machine learning tools. Important scientific developments enabled by Galaxy include Vertebrate Genome Project (VGP) assembly workflows and global SARS-CoV-2 collaborations.

AB - Galaxy is a mature, browser accessible workbench for scientific computing. It enables scientists to share, analyze and visualize their own data, with minimal technical impediments. A thriving global community continues to use, maintain and contribute to the project, with support from multiple national infrastructure providers that enable freely accessible analysis and training services. The Galaxy Training Network supports free, self-directed, virtual training with >230 integrated tutorials. Project engagement metrics have continued to grow over the last 2 years, including source code contributions, publications, software packages wrapped as tools, registered users and their daily analysis jobs, and new independent specialized servers. Key Galaxy technical developments include an improved user interface for launching large-scale analyses with many files, interactive tools for exploratory data analysis, and a complete suite of machine learning tools. Important scientific developments enabled by Galaxy include Vertebrate Genome Project (VGP) assembly workflows and global SARS-CoV-2 collaborations.

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DO - 10.1093/nar/gkac247

M3 - Article

C2 - 35446428

AN - SCOPUS:85134754515

SN - 0305-1048

VL - 50

SP - W345-W351

JO - Nucleic acids research

JF - Nucleic acids research

IS - W1

ER -

The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update

Abstract

Bibliographical note

UN SDGs

PubMed: MeSH publication types

Publisher link

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