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Challenges of Large-Scale Biomedical Workflows on the Cloud -- A Case Study on the Need for Reproducibility of Results
12 references·0 citing·39 second hop
Challenges of Large-Scale Biomedical Workflows on the Cloud -- A Case Study on the Need for Reproducibility of Results (2015)Challenges of Large-Scale Biomedical Work…Reproducible Software Appliances for Experimentation (2014)Reproducible Software Applian…Yabi: An online research environment for grid, high performance and cloud computing (2012)Yabi: An online research envi…Virtual Appliances, Cloud Computing, and Reproducible Research (2012)Virtual Appliances, Cloud Com…Next-generation sequencing data interpretation: enhancing reproducibility and accessibility (2012)Next-generation sequencing da…CloudMan as a platform for tool, data, and analysis distribution (2012)CloudMan as a platform for to…Bpipe: a tool for running and managing bioinformatics pipelines (2012)Bpipe: a tool for running and…Towards Reproducible eScience in the Cloud (2011)Towards Reproducible eScience…Harnessing cloud computing with Galaxy Cloud (2011)Harnessing cloud computing wi…Believe it or not: how much can we rely on published data on potential drug targets? (2011)Believe it or not: how much c…In silico research in the era of cloud computing (2010)In silico research in the era…Why Most Published Research Findings Are False (2005)Why Most Published Research F…Why Most Published Research Findings Are False (2005)Why Most Published Research F…Creating a bioinformatics nation (2002)Mobyle: a new full web bioinformatics framework (2009)Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences (2010)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)Galaxy: A platform for interactive large-scale genome analysis (2005)Taverna: a tool for building and running workflows of services (2006)Examining the Challenges of Scientific Workflows (2007)The Collage Authoring Environment (2011)Genomics Virtual Laboratory: A Practical Bioinformatics Workbench for the Cloud (2015)Successes and Struggles with Computational Reproducibility: Lessons from the Fragile Families Challenge (2019)Scientific workflow management and the Kepler system (2005)Sharing interoperable workflow provenance: A review of best practices and their practical application in CWLProv (2019)Practical Reproducibility in Geography and Geosciences (2020)Taverna: a tool for the composition and enactment of bioinformatics workflows (2004)SUSHI: an exquisite recipe for fully documented, reproducible and reusable NGS data analysis (2016)Investigating reproducibility and tracking provenance – A genomic workflow case study (2017)Playing Super Mario 64 increases hippocampal grey matter in older adults (2017)Kepler: An Extensible System for Design and Execution of Scientific Workflows (2004)Lessons learned from implementing a national infrastructure in Sweden for storage and analysis of next-generation sequencing data (2013)Integration and Visualization of Translational Medicine Data for Better Understanding of Human Diseases (2016)Improving the quality of reports of meta-analyses of randomised controlled trials: the QUOROM statement (1999)Meta-analysis of Observational Studies in Epidemiology A Proposal for Reporting (2000)The CONSORT statement: revised recommendations for improving the quality of reports of parallel-group randomised trials (2001)False-Positive Psychology (2011)Power failure: why small sample size undermines the reliability of neuroscience (2013)Estimating the reproducibility of psychological science (2015)Bio-Docklets: virtualization containers for single-step execution of NGS pipelines (2017)Massively Parallel Processing of Whole Genome Sequence Data (2017)Galaxy-Kubernetes integration: scaling bioinformatics workflows in the cloud (2018)BioBlend: automating pipeline analyses within Galaxy and CloudMan (2013)Experiences building Globus Genomics: a next‐generation sequencing analysis service using Galaxy, Globus, and Amazon Web Services (2014)GalaxyTrakr: a distributed analysis tool for public health whole genome sequence data accessible to non-bioinformaticians (2021)Increasing value and reducing waste in research design, conduct, and analysis (2014)The Mass Production of Redundant, Misleading, and Conflicted Systematic Reviews and Meta‐analyses (2016)Evaluating the replicability of social science experiments in Nature and Science between 2010 and 2015 (2018)The New Statistics (2013)The ethics of algorithms: Mapping the debate (2016)
this work references cited by second hop

References

  • 2005Why Most Published Research Findings Are False10,471 cited
  • 2005Why Most Published Research Findings Are False4,702 cited
  • 2011Believe it or not: how much can we rely on published data on potential drug targets?1,885 cited
  • 2012Next-generation sequencing data interpretation: enhancing reproducibility and accessibility318 cited
  • 2012Bpipe: a tool for running and managing bioinformatics pipelines159 cited
  • 2012Yabi: An online research environment for grid, high performance and cloud computing136 cited
  • 2010In silico research in the era of cloud computing123 cited
  • 2011Harnessing cloud computing with Galaxy Cloud114 cited
  • 2012Virtual Appliances, Cloud Computing, and Reproducible Research80 cited
  • 2012CloudMan as a platform for tool, data, and analysis distribution49 cited
  • 2011Towards Reproducible eScience in the Cloud14 cited
  • 2014Reproducible Software Appliances for Experimentation10 cited

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