Scholarlink

<p>Standardized analysis pipelines contribute to making data bioinformatics research compliant with the paradigm of Findability, Accessibility, Interoperability, and Reusability (FAIR), and facilitate collaboration. Nextflow and Snakemake, two popular command-line solutions, are increasingly adopted by users, complementing GUI-based platforms such as Galaxy. We report recent developments of the nf-core framework with the new Nextflow Domain-Specific Language (DSL2). An extensive library of modules and subworkflows enables research communities to adopt common standards progressively, as resources and needs allow. We present an overview of some of the research communities built around nf-core and showcase its adoption by six EuroFAANG farmed animal research consortia.</p>

错误：搜索内容不能为空，请输入英文关键词
错误：关键词超出字数限制，请精简
高级检索

Empowering bioinformatics communities with Nextflow and nf-core

  • 期刊论文

  • 出版模式：

    开放获取

  • 发表日期：

    2025年7月29日

查看全文
  • Björn E. Langer,
  • Andreia Amaral,
  • Marie-Odile Baudement,
  • Franziska Bonath,
  • Mathieu Charles,
  • Praveen Krishna Chitneedi,
  • Emily L. Clark,
  • Paolo Di Tommaso,
  • Sarah Djebali,
  • Philip A. Ewels,
  • Sonia Eynard,
  • James A. Fellows Yates,
  • Daniel Fischer,
  • Evan W. Floden,
  • Sylvain Foissac,
  • Gisela Gabernet,
  • Maxime U. Garcia,
  • Gareth Gillard,
  • Manu Kumar Gundappa,
  • Cervin Guyomar,
  • Christopher Hakkaart,
  • Friederike Hanssen,
  • Peter W. Harrison,
  • Matthias Hörtenhuber,
  • Cyril Kurylo,
  • Christa Kühn,
  • Sandrine Lagarrigue,
  • Delphine Lallias,
  • Daniel J. Macqueen,
  • Edmund Miller,
  • Júlia Mir-Pedrol,
  • Gabriel Costa Monteiro Moreira,
  • Sven Nahnsen,
  • Harshil Patel,
  • Alexander Peltzer,
  • Frederique Pitel,
  • Yuliaxis Ramayo-Caldas,
  • Marcel da Câmara Ribeiro-Dantas,
  • Dominique Rocha,
  • Mazdak Salavati,
  • Alexey Sokolov,
  • Jose Espinosa-Carrasco,
  • Cedric Notredame,
  • the nf-core community

摘要

Standardized analysis pipelines contribute to making data bioinformatics research compliant with the paradigm of Findability, Accessibility, Interoperability, and Reusability (FAIR), and facilitate collaboration. Nextflow and Snakemake, two popular command-line solutions, are increasingly adopted by users, complementing GUI-based platforms such as Galaxy. We report recent developments of the nf-core framework with the new Nextflow Domain-Specific Language (DSL2). An extensive library of modules and subworkflows enables research communities to adopt common standards progressively, as resources and needs allow. We present an overview of some of the research communities built around nf-core and showcase its adoption by six EuroFAANG farmed animal research consortia.