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An Empirical Investigation on the Challenges in Scientific Workflow Systems Development
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An Empirical Investigation on the Challenges in Scientific Workflow Systems Development (2025)An Empirical Investigation on the Challen…The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update (2022)The Galaxy platform for acces…Sustainable data analysis with Snakemake (2021)Sustainable data analysis wit…Reproducible, scalable, and shareable analysis pipelines with bioinformatics workflow managers (2021)Reproducible, scalable, and s…Toil enables reproducible, open source, big biomedical data analyses (2017)Toil enables reproducible, op…Nextflow enables reproducible computational workflows (2017)Nextflow enables reproducible…FireWorks: a dynamic workflow system designed for high‐throughput applications (2015)FireWorks: a dynamic workflow…An introduction to Docker for reproducible research (2015)An introduction to Docker for…Clustering scientific documents with topic modeling (2014)Clustering scientific documen…Snakemake—a scalable bioinformatics workflow engine (2012)Snakemake—a scalable bioinfor…Interrater reliability: the kappa statistic (2012)Interrater reliability: the k…KNIME - the Konstanz information miner (2009)KNIME - the Konstanz informat…Scientific Workflow: A Survey and Research Directions (2008)Scientific Workflow: A Survey…Provenance and scientific workflows (2008)Provenance and scientific wor…Examining the Challenges of Scientific Workflows (2007)Examining the Challenges of S…Galaxy: A platform for interactive large-scale genome analysis (2005)Galaxy: A platform for intera…Taverna: a tool for the composition and enactment of bioinformatics workflows (2004)Taverna: a tool for the compo…Reproducible Research in Computational Science (2011)Computational Reproducibility in Archaeological Research: Basic Principles and a Case Study of Their Implementation (2016)Scientific workflows for computational reproducibility in the life sciences: Status, challenges and opportunities (2017)Automated assessment of psychiatric disorders using speech: A systematic review (2020)Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences (2010)Bioconda: sustainable and comprehensive software distribution for the life sciences (2018)Reproducibility: A tragedy of errors (2016)The nf-core framework for community-curated bioinformatics pipelines (2020)The EMBL-EBI Job Dispatcher sequence analysis tools framework in 2024 (2024)1,500 scientists lift the lid on reproducibility (2016)The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update (2018)The five pillars of computational reproducibility: bioinformatics and beyond (2023)The Galaxy platform for accessible, reproducible, and collaborative data analyses: 2024 update (2024)A Coefficient of Agreement for Nominal Scales (1960)Game-based Learning and 21st century skills: A review of recent research (2016)Intercoder Reliability in Qualitative Research: Debates and Practical Guidelines (2020)Student Motivation and Associated Outcomes: A Meta-Analysis From Self-Determination Theory (2021)Blending Big Data Analytics: Review on Challenges and a Recent Study (2019)Towards reproducible computational drug discovery (2020)Methods included (2022)The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update (2016)Taverna: a tool for building and running workflows of services (2006)Workflows and e-Science: An overview of workflow system features and capabilities (2008)Ten Simple Rules for Reproducible Computational Research (2013)Sustainable data analysis with Snakemake (2021)Empowering bioinformatics communities with Nextflow and nf-core (2025)
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References

  • 2012Interrater reliability: the kappa statistic19,799 cited
  • 2017Nextflow enables reproducible computational workflows3,985 cited
  • 2012Snakemake—a scalable bioinformatics workflow engine2,775 cited
  • 2005Galaxy: A platform for interactive large-scale genome analysis2,027 cited
  • 2021Sustainable data analysis with Snakemake1,646 cited
  • 2004Taverna: a tool for the composition and enactment of bioinformatics workflows1,602 cited
  • 2017Toil enables reproducible, open source, big biomedical data analyses1,362 cited
  • 2022The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update1,280 cited
  • 2009KNIME - the Konstanz information miner1,190 cited
  • 2015An introduction to Docker for reproducible research1,058 cited
  • 2015FireWorks: a dynamic workflow system designed for high‐throughput applications548 cited
  • 2007Examining the Challenges of Scientific Workflows517 cited
  • 2008Provenance and scientific workflows470 cited
  • 2008Scientific Workflow: A Survey and Research Directions243 cited
  • 2014Clustering scientific documents with topic modeling239 cited

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2021
Reproducible, scalable, and shareable analysis pipelines with bioinformatics workflow managers
228 cited

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