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Sharing and performance optimization of reproducible workflows in the cloud
16 references·0 citing·43 second hop
Sharing and performance optimization of reproducible workflows in the cloud (2019)Sharing and performance optimization of r…The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update (2018)The Galaxy platform for acces…Scientific workflows for computational reproducibility in the life sciences: Status, challenges and opportunities (2017)Scientific workflows for comp…Reproducibility of computational workflows is automated using continuous analysis (2017)Reproducibility of computatio…Practical Computational Reproducibility in the Life Sciences (2017)Practical Computational Repro…Using a suite of ontologies for preserving workflow-centric research objects (2015)Using a suite of ontologies f…Implementing Reproducible Research (2014)Implementing Reproducible Res…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…ReproZip: using provenance to support computational reproducibility (2013)ReproZip: using provenance to…Provenance and data differencing for workflow reproducibility analysis (2013)Provenance and data differenc…Why workflows break — Understanding and combating decay in Taverna workflows (2012)Why workflows break — Underst…Virtual Appliances, Cloud Computing, and Reproducible Research (2012)Virtual Appliances, Cloud Com…Taverna, Reloaded (2010)Taverna, ReloadedmyExperiment: a repository and social network for the sharing of bioinformatics workflows (2010)myExperiment: a repository an…Workflows and e-Science: An overview of workflow system features and capabilities (2008)Workflows and e-Science: An o…Scientific Workflow: A Survey and Research Directions (2008)Scientific Workflow: A Survey…Scientific workflow management and the Kepler system (2005)Scientific workflow managemen…Taverna: a tool for the composition and enactment of bioinformatics workflows (2004)YAWL: yet another workflow language (2004)Neuroimaging Study Designs, Computational Analyses and Data Provenance Using the LONI Pipeline (2010)Elastic Business Process Management: State of the art and open challenges for BPM in the cloud (2014)A characterization of workflow management systems for extreme-scale applications (2017)The origins of intelligence in children. (1952)The case for motivated reasoning. (1990)Why Most Published Research Findings Are False (2005)Exploratory Research (2020)Towards reproducible computational drug discovery (2020)Workflow Management (2002)Workflow Patterns (2003)Taverna: lessons in creating a workflow environment for the life sciences (2005)Provenance and scientific workflows (2008)FireWorks: a dynamic workflow system designed for high‐throughput applications (2015)Taverna: a tool for building and running workflows of services (2006)Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences (2010)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)Kepler: An Extensible System for Design and Execution of Scientific Workflows (2004)The design and realisation of the Virtual Research Environment for social sharing of workflows (2008)Tavaxy: Integrating Taverna and Galaxy workflows with cloud computing support (2012)Scientific workflows for bibliometrics (2016)Scientific workflows: Past, present and future (2017)Galaxy: A platform for interactive large-scale genome analysis (2005)Snakemake—a scalable bioinformatics workflow engine (2012)PhenoMeNal: processing and analysis of metabolomics data in the cloud (2018)FAIR Computational Workflows (2019)The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update (2016)Singularity: Scientific containers for mobility of compute (2017)The nf-core framework for community-curated bioinformatics pipelines (2020)Sustainable data analysis with Snakemake (2021)Sustainable data analysis with Snakemake (2021)1,500 scientists lift the lid on reproducibility (2016)Jupyter Notebooks – a publishing format for reproducible computational workflows (2016)Streamlining data-intensive biology with workflow systems (2021)The five pillars of computational reproducibility: bioinformatics and beyond (2023)Empowering bioinformatics communities with Nextflow and nf-core (2025)Geospatial Cyberinfrastructure: Past, present and future (2010)Reproducibility in Scientific Computing (2018)OpenMOLE, a workflow engine specifically tailored for the distributed exploration of simulation models (2013)A systematic review of provenance systems (2018)
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References

  • 2018The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update3,659 cited
  • 2005Scientific workflow management and the Kepler system1,681 cited
  • 2008Workflows and e-Science: An overview of workflow system features and capabilities832 cited
  • 2013The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloud678 cited
  • 2014Implementing Reproducible Research313 cited
  • 2010myExperiment: a repository and social network for the sharing of bioinformatics workflows299 cited
  • 2008Scientific Workflow: A Survey and Research Directions243 cited
  • 2017Scientific workflows for computational reproducibility in the life sciences: Status, challenges and opportunities181 cited
  • 2017Practical Computational Reproducibility in the Life Sciences158 cited
  • 2010Taverna, Reloaded153 cited
  • 2017Reproducibility of computational workflows is automated using continuous analysis151 cited
  • 2015Using a suite of ontologies for preserving workflow-centric research objects131 cited
  • 2013ReproZip: using provenance to support computational reproducibility91 cited
  • 2012Why workflows break — Understanding and combating decay in Taverna workflows83 cited

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2012
Virtual Appliances, Cloud Computing, and Reproducible Research
80 cited
  • 2013Provenance and data differencing for workflow reproducibility analysis47 cited
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