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uap: reproducible and robust HTS data analysis
16 references·0 citing·29 second hop
uap: reproducible and robust HTS data analysis (2019)uap: reproducible and robust HTS data ana…The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update (2018)The Galaxy platform for acces…Practical Computational Reproducibility in the Life Sciences (2017)Practical Computational Repro…Nextflow enables reproducible computational workflows (2017)Nextflow enables reproducible…1,500 scientists lift the lid on reproducibility (2016)1,500 scientists lift the lid…BigDataScript: a scripting language for data pipelines (2014)BigDataScript: a scripting la…The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloud (2013)The Taverna workflow suite: d…Ten Simple Rules for Reproducible Computational Research (2013)Ten Simple Rules for Reproduc…Snakemake—a scalable bioinformatics workflow engine (2012)Snakemake—a scalable bioinfor…Next-generation sequencing data interpretation: enhancing reproducibility and accessibility (2012)Next-generation sequencing da…Bpipe: a tool for running and managing bioinformatics pipelines (2012)Bpipe: a tool for running and…Reproducible Research in Computational Science (2011)Reproducible Research in Comp…Ruffus: a lightweight Python library for computational pipelines (2010)Ruffus: a lightweight Python …Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences (2010)Galaxy: a comprehensive appro…KNIME: The Konstanz Information Miner (2008)KNIME: The Konstanz Informati…Guest Editors' Introduction: Reproducible Research (2008)Guest Editors' Introduction: …KNIME: The Konstanz Information Miner (2006)KNIME: The Konstanz Informati…Creating a bioinformatics nation (2002)Mobyle: a new full web bioinformatics framework (2009)Dissemination of scientific software with Galaxy ToolShed (2014)Nonindependence and sensitivity analyses in ecological and evolutionary meta‐analyses (2017)Scientific workflows for computational reproducibility in the life sciences: Status, challenges and opportunities (2017)Taverna: a tool for building and running workflows of services (2006)AiiDA: automated interactive infrastructure and database for computational science (2015)A review of bioinformatic pipeline frameworks (2016)BioContainers: an open-source and community-driven framework for software standardization (2017)Taverna: a tool for the composition and enactment of bioinformatics workflows (2004)Galaxy: A platform for interactive large-scale genome analysis (2005)Good enough practices in scientific computing. (2017)Preferred reporting items for systematic reviews and meta‐analyses in ecology and evolutionary biology: a PRISMA extension (2021)Design Patterns: Elements of Reusable Object-Oriented Software (1994)Bioconductor: open software development for computational biology and bioinformatics (2004)Reproducibility: A tragedy of errors (2016)The EMBL-EBI Job Dispatcher sequence analysis tools framework in 2024 (2024)The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update (2016)Singularity: Scientific containers for mobility of compute (2017)Scientific workflows for bibliometrics (2016)Reproducible, scalable, and shareable analysis pipelines with bioinformatics workflow managers (2021)Sustainable data analysis with Snakemake (2021)Increasing value and reducing waste in research design, conduct, and analysis (2014)Reproducibility in Science (2014)An introduction to Docker for reproducible research (2015)Bioconda: sustainable and comprehensive software distribution for the life sciences (2018)Sustainable data analysis with Snakemake (2021)A manifesto for reproducible science (2017)The nf-core framework for community-curated bioinformatics pipelines (2020)
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References

  • 20161,500 scientists lift the lid on reproducibility4,200 cited
  • 2017Nextflow enables reproducible computational workflows3,985 cited
  • 2018The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update3,659 cited
  • 2010Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences3,455 cited
  • 2012Snakemake—a scalable bioinformatics workflow engine2,775 cited
  • 2011Reproducible Research in Computational Science1,446 cited
  • 2008KNIME: The Konstanz Information Miner1,401 cited
  • 2013Ten Simple Rules for Reproducible Computational Research875 cited
  • 2013The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloud678 cited
  • 2012Next-generation sequencing data interpretation: enhancing reproducibility and accessibility318 cited
  • 2012Bpipe: a tool for running and managing bioinformatics pipelines159 cited
  • 2017Practical Computational Reproducibility in the Life Sciences158 cited
  • 2006KNIME: The Konstanz Information Miner151 cited
  • 2010Ruffus: a lightweight Python library for computational pipelines135 cited
  • 2008

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Guest Editors' Introduction: Reproducible Research
127 cited
  • 2014BigDataScript: a scripting language for data pipelines34 cited
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