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Guide to e-Science pp 145–177Cite as

Galaxy: A Gateway to Tools in e-Science

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Part of the book series: Computer Communications and Networks ((CCN))

Abstract

e-Science focuses on the use of computational tools and resources to analyze large scientific datasets. Performing these analyses often requires running a variety of computational tools specific to a given scientific domain. This places a significant burden on individual researchers for whom simply running these tools may be prohibitively difficult, let alone combining tools into a complete analysis, or acquiring data and appropriate computational resources. This limits the productivity of individual researchers and represents a significant barrier to potential scientific discovery. In order to alleviate researchers from such unnecessary complexities and promote more robust science, we have developed a tool integration framework called Galaxy; Galaxy abstracts individual tools behind a consistent and easy-to-use web interface to enable advanced data analysis that requires no informatics expertise. Furthermore, Galaxy facilitates easy addition of developed tools, thus supporting tool developers, as well as transparent and reproducible communication of computationally intensive analyses. Recently, we have enabled trivial deployment of complete a Galaxy solution on aggregated infrastructures, including cloud computing providers.

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Notes

  1. 1.

    http://galaxyproject.org

  2. 2.

    http://usegalaxy.org/

  3. 3.

    http://usegalaxy.org/u/aun1/p/windshield-splatter

  4. 4.

    http://mercurial.selenic.com/

  5. 5.

    http://bitbucket.org/

  6. 6.

    http://www.sqlalchemy.org/

  7. 7.

    http://main.g2.bx.psu.edu/u/fischerlab/h/sm1186088

  8. 8.

    http://www.rabbitmq.com/

  9. 9.

    http://usegalaxy.org/cloud

  10. 10.

    http://galaxy.fml.tuebingen.mpg.de/

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Acknowledgments

Galaxy is developed by the Galaxy Team: Enis Afgan, Guruprasad Ananda, Dannon Baker, Dan Blankenberg, Ramkrishna Chakrabarty, Nate Coraor, Jeremy Goecks, Greg Von Kuster, Ross Lazarus, Kanwei Li, Anton Nekrutenko, James Taylor, and Kelly Vincent. We thank our many collaborators who support and maintain data warehouses and browsers accessible through Galaxy. Development of the Galaxy framework is supported by NIH grants HG004909 (A.N. and J.T), HG005133 (J.T. and A.N), and HG005542 (J.T. and A.N.), by NSF grant DBI-0850103 (A.N. and J.T) and by funds from the Huck Institutes for the Life Sciences and the Institute for CyberScience at Penn State. Additional funding is provided, in part, under a grant with the Pennsylvania Department of Health using Tobacco Settlement Funds. The Department specifically disclaims responsibility for any analyses, interpretations, or conclusions.

Author information

Authors and Affiliations

  1. Department of Biology and Department of Mathematics & Computer Science, Emory University, Druid Hills, GA, USA

    Enis Afgan, Jeremy Goecks, Dannon Baker & James Taylor

  2. Huck Institutes of the Life Sciences and Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, USA

    Nate Coraor & Anton Nekrutenko

Authors
  1. Enis Afgan
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  2. Jeremy Goecks
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  3. Dannon Baker
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  4. Nate Coraor
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  5. Anton Nekrutenko
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  6. James Taylor
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The Galaxy Team

Corresponding author

Correspondence to James Taylor .

Editor information

Editors and Affiliations

  1. Reading e-Science Centre, Harry Pitt Building, University of Reading, Earley Gate, Whiteknights 3, Reading, RG6 6AL, United Kingdom

    Xiaoyu Yang

  2. Pervasive Technology Institute, Indiana University, East 10th Street 2719, Bloomington, 47408, Indiana, USA

    Lizhe Wang

  3. Fac. Professional Studies, School of Computing, Thames Valley University, St. Mary's Road TC372, Ealing, London, W5 5RF, United Kingdom

    Wei Jie

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© 2011 Springer-Verlag London Limited

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Afgan, E. et al. (2011). Galaxy: A Gateway to Tools in e-Science. In: Yang, X., Wang, L., Jie, W. (eds) Guide to e-Science. Computer Communications and Networks. Springer, London. https://doi.org/10.1007/978-0-85729-439-5_6

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  • DOI: https://doi.org/10.1007/978-0-85729-439-5_6

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  • Print ISBN: 978-0-85729-438-8

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