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References
Allison, D.B., Brown, A.W., George, B.J. & Kaiser, K.A. Nature 530, 27–29 (2016).
Editorial. Nat. Methods 12, 1099 (2015).
Editorial. Nat. Biotechnol. 33, 319 (2015).
Piccolo, S.R. & Frampton, M.B. Gigascience 5, 30 (2016).
Masca, N.G.D. et al. eLife https://dx.doi.org/10.7554/eLife.05519 (2015).
LeVeque, R.J., Mitchell, I.M. & Stodden, V. Comput. Sci. Eng. 14, 13–17 (2012).
Garijo, D. et al. PLoS One 8, e80278 (2013).
Loman, N. & Watson, M. Nat. Biotechnol. 31, 996–998 (2013).
Bray, N.L., Pimentel, H., Melsted, P. & Pachter, L. Nat. Biotechnol. 34, 525–527 (2016).
Steinbiss, S. et al. Nucleic Acids Res. 44 1, W29–34 (2016).
Sadedin, S.P., Pope, B. & Oshlack, A. Bioinformatics 28, 1525–1526 (2012).
Belmann, P. et al. Gigascience 4, 47 (2015).
Moreews, F. et al. F1000Res 4, 1443 (2015).
Hosny, A., Vera-Licona, P., Laubenbacher, R. & Favre, T. Bioinformatics 32, 2396–2398 (2016).
Perkel, J. Nature 538, 127–128 (2016).
Köster, J. & Rahmann, S. Bioinformatics 28, 2520–2522 (2012).
Di Tommaso, P. et al. PeerJ 3, e1273 (2015).
Goecks, J., Nekrutenko, A. & Taylor, J. Genome Biol. 11, R86 (2010).
Blankenberg, D. et al. Genome Biol. 15, 403 (2014).
Vivian, J. et al. Preprint at bioRxiv https://biorxiv.org/content/early/2016/07/07/062497 (2016).
Stamatakis, A. Bioinformatics 22, 2688–2690 (2006).
Byron, S.A., Van Keuren-Jensen, K.R., Engelthaler, D.M., Carpten, J.D. & Craig, D.W. Nat. Rev. Genet. 17, 257–271 (2016).
Acknowledgements
We wish to thank T. Ferrar and J. Cotter for manuscript revision and helpful comments, and R. Guigo for suggesting ENCODE applications. This project was supported by the Center for Genomic Regulation and the Spanish Plan Nacional and the Spanish Ministry of Economy and Competitiveness, 'Centro de Excelencia Severo Ochoa 2013-2017'. M.C. and E.W.F. were supported by the La Caixa Foundation. We acknowledge the support of the CERCA Programme/Generalitat de Catalunya.
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Supplementary Text and Figures
Supplementary Note, Supplementary Methods, Supplementary Table 1 and Supplementary Figures 1–3 (PDF 1448 kb)
Supplementary Code
Nextflow 0.22.0 Code (ZIP 2056 kb)
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Di Tommaso, P., Chatzou, M., Floden, E. et al. Nextflow enables reproducible computational workflows. Nat Biotechnol 35, 316–319 (2017). https://doi.org/10.1038/nbt.3820
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DOI: https://doi.org/10.1038/nbt.3820
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