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  Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager

Fellows Yates, J. A., Lamnidis, T. C., Borry, M., Andrades Valtueña, A., Fagernäs, Z., Clayton, S., et al. (2020). Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager. bioRxiv. doi:10.1101/2020.06.11.145615.

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Item Permalink: http://hdl.handle.net/21.11116/0000-0007-79DA-C Version Permalink: http://hdl.handle.net/21.11116/0000-0007-79DB-B
Genre: Journal Article

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Yates_Reproducible_BioArXiv_Preprint_2020.pdf (Publisher version), 2MB
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Yates_Reproducible_BioArXiv_Preprint_2020.pdf
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2020
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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.

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 Creators:
Fellows Yates, James A.1, Author              
Lamnidis, Thiseas Christos1, Author              
Borry, Maxime1, Author              
Andrades Valtueña, Aida1, Author              
Fagernäs, Zandra1, Author              
Clayton, Stephen1, Author              
Garcia, Maxime U., Author
Neukamm, Judith, Author
Peltzer, Alexander1, Author              
Affiliations:
1Archaeogenetics, Max Planck Institute for the Science of Human History, Max Planck Society, ou_2074310              

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 Abstract: The broadening utilisation of ancient DNA to address archaeological, palaeontological, and biological questions is resulting in a rising diversity in the size of laboratories and scale of analyses being performed. In the context of this heterogeneous landscape, we present nf-core/eager, an advanced and entirely redesigned and extended version of the EAGER pipeline for the analysis of ancient genomic data. This Nextflow pipeline aims to address three main themes: accessibility and adaptability to different computing configurations, reproducibility to ensure robust analytical standards, and updating the pipeline to the latest routine ancient genomic practises. This new version of EAGER has been developed within the nf-core initiative to ensure high-quality software development and maintenance support; contributing to a long-term lifecycle for the pipeline. nf-core/eager will assist in ensuring that ancient DNA sequencing data can be used by a diverse range of research groups and fields.Competing Interest StatementThe authors have declared no competing interest.

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Language(s): eng - English
 Dates: 2020
 Publication Status: Published online
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 Identifiers: DOI: 10.1101/2020.06.11.145615
BibTex Citekey: Yates2020.06.11.145615
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Title: bioRxiv
Source Genre: Journal
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Publ. Info: Cold Spring Harbor Laboratory
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