The nf-core framework for community-curated bioinformatics pipelines

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Fig. 1: Main concepts of nf-core.

Data availability

No datasets were generated or analyzed during this study.

Code availability

The source code for the nf-core framework and all nf-core pipelines is publicly available at https://github.com/nf-core/. Where applicable, Zenodo DOIs are available on the respective pipeline repositories.

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Acknowledgements

The authors would also like to thank the following people for their contributions: F. Bonath, O. Contreras-López, S. Haglund, R. Hammarén, A. Jemt, R. A. Olsen, S. Paneerselvam, M. Proks, J. Wan, C. Wang, J. Westholm and D. Yuen (Science for Life Laboratory, Stockholm, Sweden); C. C. Shih (A*STAR Genome Institute of Singapore); M. Hoeppner (Institut für Klinische Molekularbiologie, Kiel, Germany); V. Malladi (University of Texas Southwestern Medical Center, Dallas); A. Duncan (Ontario Institute for Cancer Research); H. Gourlé (Swedish University of Agricultural Sciences, Uppsala); G. Gabernet, S. Heumos, T. Koch, C. Mohr and D. Straub (Quantitative Biology Centre, Tübingen, Germany); G. Kelly (Francis Crick Institute London); Q. Zhao (Sun Yat-sen University Cancer Center, Guangzhou, China); and E. Floden (Comparative Bioinformatics Laboratory Centre for Genomic Regulation (CRG), Barcelona, Spain). A.P., S.F. and S.N. acknowledge funding from the Deutsche Forschungsgemeinschaft (German Research Foundation, DFG; core facilities initiative, KO-2313/6-1 and KO- 2313-2, Institutional Strategy of the University of Tübingen, ZUK 63). A.P. and S.N. acknowledge funding by the Sonderforschungsbereich SFB/TR 209 “Liver cancer” of the DFG. S.N. acknowledges funding from the DFG Project ID 398967434 – TRR 261 and the DFG im Rahmen der Exzellenzstrategie des Bundes und der Länder EXC 2180 – 390900677 and EXC 2124 – 390838134. P.D. acknowledges the support of the Spanish Ministry of Economy, Industry and Competitiveness (MEIC) to the EMBL partnership, the Centro de Excelencia Severo Ochoa and the CERCA Programme / Generalitat de Catalunya. P.D.’s work is supported by the European Union’s Horizon 2020 research and innovation program under grant agreement 815668 (BovReg), the Spanish Ministry of Economy, Industry and Competitiveness (BFU2017-88264-P) and the Secretaria d’Universitats i Recerca del Departament d’Economia i Coneixement de la Generalitat de Catalunya (2017 SGR 447).

Author information

Correspondence to Sven Nahnsen.

Supplementary information

Supplementary Information

Supplementary Note, Supplementary Figs. 1–4 and Supplementary Tables 1 and 2

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Ewels, P.A., Peltzer, A., Fillinger, S. et al. The nf-core framework for community-curated bioinformatics pipelines. Nat Biotechnol (2020). https://doi.org/10.1038/s41587-020-0439-x

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