Abstract
The extraordinary throughput of next-generation sequencing (NGS) technology is outpacing our ability to analyze and interpret the data. This chapter will focus on practical informatics methods, strategies, and software tools for transforming NGS data into usable information through the use of a web-based platform, Galaxy. The Galaxy interface is explored through several different types of example analyses. Instructions for running one’s own Galaxy server on local hardware or on cloud computing resources are provided. Installing new tools into a personal Galaxy instance is also demonstrated.
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Acknowledgments
Efforts of the Galaxy team (E. Afgan, D. Baker, D.B., D. Bouvier, M. Cech, D. Clements, N. Coraor, C. Eberhard, D. Francheteau, J. Goecks, S. Guerler, J.J., G. Von Kuster, R. Lazarus, Anton Nekrutenko, and James Taylor) were instrumental in making this work possible. We extend a special thank you to the Galaxy community for their continuing contributions, both inspirational and technical.
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Blankenberg, D., Hillman-Jackson, J. (2014). Analysis of Next-Generation Sequencing Data Using Galaxy. In: Kidder, B. (eds) Stem Cell Transcriptional Networks. Methods in Molecular Biology, vol 1150. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-0512-6_2
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DOI: https://doi.org/10.1007/978-1-4939-0512-6_2
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