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The Galaxy platform for accessible, reproducible, and collaborative data analyses: 2024 update

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  • معلومة اضافية
    • Contributors:
      Rockefeller University New York; Johns Hopkins University (JHU); Australia's Academic and Research Network (AARNet); The Open University Milton Keynes (OU); Queensland Cyber Infrastructure Foundation St Lucia (QCIF); Institut Français de Bioinformatique (IFB-CORE); Institut National de Recherche en Informatique et en Automatique (Inria)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE); Plateforme Auvergne Bioinformatique (AuBi); Mésocentre Clermont Auvergne; Université Clermont Auvergne (UCA)-Université Clermont Auvergne (UCA); Institut für Informatik Leipzig; Leipzig University / Universität Leipzig; Cleveland Clinic; Università degli Studi di Milano = University of Milan (UNIMI); Plateforme bioinformatique GenOuest Rennes; Université de Rennes (UR)-Plateforme Génomique Santé Biogenouest®-Inria Rennes – Bretagne Atlantique; Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-GESTION DES DONNÉES ET DE LA CONNAISSANCE (IRISA-D7); Institut de Recherche en Informatique et Systèmes Aléatoires (IRISA); Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes); Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université de Bretagne Sud (UBS)-École normale supérieure - Rennes (ENS Rennes)-Institut National de Recherche en Informatique et en Automatique (Inria)-CentraleSupélec-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique (IMT Atlantique); Institut Mines-Télécom Paris (IMT)-Institut Mines-Télécom Paris (IMT)-Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes); Institut Mines-Télécom Paris (IMT)-Institut Mines-Télécom Paris (IMT)-Institut de Recherche en Informatique et Systèmes Aléatoires (IRISA); Institut Mines-Télécom Paris (IMT)-Institut Mines-Télécom Paris (IMT)-Institut National des Sciences Appliquées - Rennes (INSA Rennes); Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université de Bretagne Sud (UBS)-École normale supérieure - Rennes (ENS Rennes)-CentraleSupélec-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique (IMT Atlantique); Institut Mines-Télécom Paris (IMT)-Institut Mines-Télécom Paris (IMT); University of Melbourne; Australian Biocommons; Pennsylvania State University (Penn State); Penn State System; Barcelona Supercomputing Center - Centro Nacional de Supercomputacion (BSC-CNS); Universiteit Gent = Ghent University = Université de Gand (UGENT); VIB Belgium; HumanTechnopole Milan; Vlaams Instituut voor Biotechnologie Ghent, Belgique (VIB); Erasmus University Medical Center Rotterdam (Erasmus MC); Masaryk University Brno (MUNI); Albert-Ludwigs-Universität Freiburg = University of Freiburg; University of Limerick (UL); Simula Research Laboratory OSLO; Muséum National d'Histoire Naturelle Concarneau; H. Lee Moffitt Cancer Center and Research Institute; Science and Technology Facilities Council (STFC); Université de Clermont-Ferrand; University of Minnesota System (UMN); University of Oslo (UiO); German Cancer Research Center - Deutsches Krebsforschungszentrum Heidelberg (DKFZ); Friedrich Miescher Institute for Biomedical Research (FMI); Novartis Research Foundation; University of Edinburgh (Edin.); Unité Mixte Data Terra (Data Terra); Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Institut national des sciences de l'Univers (INSU - CNRS)-Institut National de l'Information Géographique et Forestière IGN (IGN)-Centre National de la Recherche Scientifique (CNRS)-Centre National d’Études Spatiales Paris (CNES)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Météo-France; University of Bradford; University of Bergen (UiB); 52° North Spatial Information Research; Universität Heidelberg Heidelberg = Heidelberg University; Galaxy Project; Station biologique de Roscoff = Roscoff Marine Station (SBR); Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS); James Cook University (JCU); Center for Advanced Studies, Research and Development in Sardinia (CRS4); STFC Rutherford Appleton Laboratory (RAL); Ecole Polytechnique Fédérale de Lausanne (EPFL); Harvard Medical School Boston (HMS); The University of Queensland (UQ All campuses : Brisbane, Dutton Park Gatton, Herston, St Lucia and other locations ); AstraZeneca Cambridge, UK; Griffith University Brisbane; University of Maiduguri; Lerner Research Institute Cleveland, OH, USA; Sorbonne Université (SU); Oregon Health and Science University Portland (OHSU); Université Paris Cité (UPCité); EMBL Heidelberg; Earlham Institute Norwich; National Research Council of Italy; ELIXIR Hub Cambridge; European Bioinformatics Institute Hinxton (EMBL-EBI); Oak Ridge National Laboratory Oak Ridge (ORNL); UT-Battelle, LLC
    • بيانات النشر:
      CCSD
      Oxford University Press
    • الموضوع:
      2024
    • Collection:
      Institut National de la Recherche Agronomique: ProdINRA
    • نبذة مختصرة :
      International audience ; Abstract Galaxy (https://galaxyproject.org) is deployed globally, predominantly through free-to-use services, supporting user-driven research that broadens in scope each year. Users are attracted to public Galaxy services by platform stability, tool and reference dataset diversity, training, support and integration, which enables complex, reproducible, shareable data analysis. Applying the principles of user experience design (UXD), has driven improvements in accessibility, tool discoverability through Galaxy Labs/subdomains, and a redesigned Galaxy ToolShed. Galaxy tool capabilities are progressing in two strategic directions: integrating general purpose graphical processing units (GPGPU) access for cutting-edge methods, and licensed tool support. Engagement with global research consortia is being increased by developing more workflows in Galaxy and by resourcing the public Galaxy services to run them. The Galaxy Training Network (GTN) portfolio has grown in both size, and accessibility, through learning paths and direct integration with Galaxy tools that feature in training courses. Code development continues in line with the Galaxy Project roadmap, with improvements to job scheduling and the user interface. Environmental impact assessment is also helping engage users and developers, reminding them of their role in sustainability, by displaying estimated CO2 emissions generated by each Galaxy job.
    • الرقم المعرف:
      10.1093/nar/gkae410
    • الدخول الالكتروني :
      https://hal.science/hal-04645009
      https://hal.science/hal-04645009v1/document
      https://hal.science/hal-04645009v1/file/gkae410.pdf
      https://doi.org/10.1093/nar/gkae410
    • Rights:
      http://creativecommons.org/licenses/by/ ; info:eu-repo/semantics/OpenAccess
    • الرقم المعرف:
      edsbas.3BDCB103