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Wrangling Galaxy's reference data.
Blankenberg D, Johnson JE; Galaxy Team; Taylor J, Nekrutenko A. Blankenberg D, et al. Among authors: taylor j. Bioinformatics. 2014 Jul 1;30(13):1917-9. doi: 10.1093/bioinformatics/btu119. Epub 2014 Feb 28. Bioinformatics. 2014. PMID: 24585771 Free PMC article.
Manipulation of FASTQ data with Galaxy.
Blankenberg D, Gordon A, Von Kuster G, Coraor N, Taylor J, Nekrutenko A; Galaxy Team. Blankenberg D, et al. Among authors: taylor j. Bioinformatics. 2010 Jul 15;26(14):1783-5. doi: 10.1093/bioinformatics/btq281. Epub 2010 Jun 18. Bioinformatics. 2010. PMID: 20562416 Free PMC article.
Galaxy CloudMan: delivering cloud compute clusters.
Afgan E, Baker D, Coraor N, Chapman B, Nekrutenko A, Taylor J. Afgan E, et al. Among authors: taylor j. BMC Bioinformatics. 2010 Dec 21;11 Suppl 12(Suppl 12):S4. doi: 10.1186/1471-2105-11-S12-S4. BMC Bioinformatics. 2010. PMID: 21210983 Free PMC article.
Making whole genome multiple alignments usable for biologists.
Blankenberg D, Taylor J, Nekrutenko A; Galaxy Team. Blankenberg D, et al. Among authors: taylor j. Bioinformatics. 2011 Sep 1;27(17):2426-8. doi: 10.1093/bioinformatics/btr398. Epub 2011 Jul 19. Bioinformatics. 2011. PMID: 21775304 Free PMC article.
Using Galaxy to perform large-scale interactive data analyses.
Hillman-Jackson J, Clements D, Blankenberg D, Taylor J, Nekrutenko A, Team G. Hillman-Jackson J, et al. Among authors: taylor j. Curr Protoc Bioinformatics. 2012 Jun;Chapter 10:10.5.1-10.5.47. doi: 10.1002/0471250953.bi1005s38. Curr Protoc Bioinformatics. 2012. PMID: 22700312 Free PMC article.
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update.
Afgan E, Baker D, Batut B, van den Beek M, Bouvier D, Cech M, Chilton J, Clements D, Coraor N, Grüning BA, Guerler A, Hillman-Jackson J, Hiltemann S, Jalili V, Rasche H, Soranzo N, Goecks J, Taylor J, Nekrutenko A, Blankenberg D. Afgan E, et al. Among authors: taylor j. Nucleic Acids Res. 2018 Jul 2;46(W1):W537-W544. doi: 10.1093/nar/gky379. Nucleic Acids Res. 2018. PMID: 29790989 Free PMC article.
Using galaxy to perform large-scale interactive data analyses.
Taylor J, Schenck I, Blankenberg D, Nekrutenko A. Taylor J, et al. Curr Protoc Bioinformatics. 2007 Sep;Chapter 10:Unit 10.5. doi: 10.1002/0471250953.bi1005s19. Curr Protoc Bioinformatics. 2007. PMID: 18428782 Free PMC article.
Windshield splatter analysis with the Galaxy metagenomic pipeline.
Kosakovsky Pond S, Wadhawan S, Chiaromonte F, Ananda G, Chung WY, Taylor J, Nekrutenko A; Galaxy Team. Kosakovsky Pond S, et al. Among authors: taylor j. Genome Res. 2009 Nov;19(11):2144-53. doi: 10.1101/gr.094508.109. Epub 2009 Oct 9. Genome Res. 2009. PMID: 19819906 Free PMC article.
Galaxy: a web-based genome analysis tool for experimentalists.
Blankenberg D, Von Kuster G, Coraor N, Ananda G, Lazarus R, Mangan M, Nekrutenko A, Taylor J. Blankenberg D, et al. Among authors: taylor j. Curr Protoc Mol Biol. 2010 Jan;Chapter 19:Unit 19.10.1-21. doi: 10.1002/0471142727.mb1910s89. Curr Protoc Mol Biol. 2010. PMID: 20069535 Free PMC article.
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