title: The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update.
abstract: High-throughput data production technologies, particularly 'next-generation' DNA sequencing, have ushered in widespread and disruptive changes to biomedical research. Making sense of the large datasets produced by these technologies requires sophisticated statistical and computational methods, as well as substantial computational power. This has led to an acute crisis in life sciences, as researchers without informatics training attempt to perform computation-dependent analyses. Since 2005, the Galaxy project has worked to address this problem by providing a framework that makes advanced computational tools usable by non experts. Galaxy seeks to make data-intensive research more accessible, transparent and reproducible by providing a Web-based environment in which users can perform computational analyses and have all of the details automatically tracked for later inspection, publication, or reuse. In this report we highlight recently added features enabling biomedical analyses on a large scale.
authors.affiliation: Department of Biology, Johns Hopkins University, Baltimore, MD USA.
authors.forename: Enis
authors.initials: E
authors.lastname: Afgan
authors.affiliation: Department of Biology, Johns Hopkins University, Baltimore, MD USA.
authors.forename: Dannon
authors.initials: D
authors.lastname: Baker
authors.affiliation: Institut de Biologie Paris-Seine, Université Pierre et Marie Curie, Paris, France.
authors.forename: Marius
authors.initials: M
authors.lastname: van den Beek
authors.affiliation: Department of Biochemistry and Molecular Biology, Penn State University, University Park, PA, USA.
authors.forename: Daniel
authors.initials: D
authors.lastname: Blankenberg
authors.affiliation: Department of Biochemistry and Molecular Biology, Penn State University, University Park, PA, USA.
authors.forename: Dave
authors.initials: D
authors.lastname: Bouvier
authors.affiliation: Department of Biochemistry and Molecular Biology, Penn State University, University Park, PA, USA.
authors.forename: Martin
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authors.lastname: Čech
authors.affiliation: Department of Biochemistry and Molecular Biology, Penn State University, University Park, PA, USA.
authors.forename: John
authors.initials: J
authors.lastname: Chilton
authors.affiliation: Department of Biology, Johns Hopkins University, Baltimore, MD USA.
authors.forename: Dave
authors.initials: D
authors.lastname: Clements
authors.affiliation: Department of Biochemistry and Molecular Biology, Penn State University, University Park, PA, USA.
authors.forename: Nate
authors.initials: N
authors.lastname: Coraor
authors.affiliation: Department of Biology, Johns Hopkins University, Baltimore, MD USA.
authors.forename: Carl
authors.initials: C
authors.lastname: Eberhard
authors.affiliation: Department of Computer Science, Albert-Ludwigs-University, Freiburg, Freiburg, Germany Center for Biological Systems Analysis (ZBSA), University of Freiburg, Freiburg, Germany.
authors.forename: Björn
authors.initials: B
authors.lastname: Grüning
authors.affiliation: Department of Biology, Johns Hopkins University, Baltimore, MD USA.
authors.forename: Aysam
authors.initials: A
authors.lastname: Guerler
authors.affiliation: Department of Biochemistry and Molecular Biology, Penn State University, University Park, PA, USA.
authors.forename: Jennifer
authors.initials: J
authors.lastname: Hillman-Jackson
authors.affiliation: Academic Computing Services, Penn State University, University Park, PA, USA.
authors.forename: Greg
authors.initials: G
authors.lastname: Von Kuster
authors.affiliation: Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, USA.
authors.forename: Eric
authors.initials: E
authors.lastname: Rasche
authors.affiliation: The Genome Analysis Centre, Norwich, United Kingdom.
authors.forename: Nicola
authors.initials: N
authors.lastname: Soranzo
authors.affiliation: Department of Biology, Johns Hopkins University, Baltimore, MD USA.
authors.forename: Nitesh
authors.initials: N
authors.lastname: Turaga
authors.affiliation: Department of Biology, Johns Hopkins University, Baltimore, MD USA james@taylorlab.org.
authors.forename: James
authors.initials: J
authors.lastname: Taylor
authors.affiliation: Department of Biochemistry and Molecular Biology, Penn State University, University Park, PA, USA anton@nekrut.org.
authors.forename: Anton
authors.initials: A
authors.lastname: Nekrutenko
authors.affiliation: The Computational Biology Institute, George Washington University, Washington DC, USA jgoecks@gwu.edu.
authors.forename: Jeremy
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authors.lastname: Goecks
mesh_terms: D035843:Biomedical Research; D019295:Computational Biology / Q000379:methods / Q000706:statistics & numerical data*; D030541:Databases, Genetic; D066264:Datasets as Topic / Q000706:statistics & numerical data*; D006801:Humans; D020407:Internet; D015203:Reproducibility of Results; D014584:User-Computer Interface