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Nine best practices for research software registries and repositories
16 references·1 citing·32 second hop
Nine best practices for research software registries and repositories (2022)Nine best practices for research software…A large-scale study on research code quality and execution (2022)A large-scale study on resear…Towards FAIR principles for research software (2019)Towards FAIR principles for r…How can we ensure visibility and diversity in research contributions? How the Contributor Role Taxonomy (CRediT) is helping the shift from authorship to contributorship (2019)How can we ensure visibility …Open is not enough (2018)Open is not enoughComputing environments for reproducibility: Capturing the “Whole Tale” (2018)Computing environments for re…Four simple recommendations to encourage best practices in research software (2017)Four simple recommendations t…Enhancing reproducibility for computational methods (2016)Enhancing reproducibility for…1,500 scientists lift the lid on reproducibility (2016)1,500 scientists lift the lid…Best Practices for Scientific Computing (2014)Best Practices for Scientific…The case for open computer programs (2012)The case for open computer pr…Astrophysics Source Code Library (2012)Astrophysics Source Code Libr…A component-based approach to integrated modeling in the geosciences: The design of CSDMS (2012)A component-based approach to…Reproducible Research in Computational Science (2011)Reproducible Research in Comp…Publish your computer code: it is good enough (2010)Publish your computer code: i…Computational science: ...Error (2010)Computational science: ...Err…Bioconductor: open software development for computational biology and bioinformatics (2004)Bioconductor: open software d…ENCORE: a practical implementation to improve reproducibility and transparency of computational research (2024)ENCORE: a practical implement…Promoting an open research culture (2015)Researching Mental Health Disorders in the Era of Social Media: Systematic Review (2017)The future of scientific workflows (2017)FAIR Computational Workflows (2019)Beyond authorship: attribution, contribution, collaboration, and credit (2015)Bibliometrics: The Leiden Manifesto for research metrics (2015)The Metric Tide: Independent Review of the Role of Metrics in Research Assessment and Management (2015)The Impact of Infectious Disease-Related Public Health Emergencies on Suicide, Suicidal Behavior, and Suicidal Thoughts (2020)The AI Ghostwriter Effect: When Users do not Perceive Ownership of AI-Generated Text but Self-Declare as Authors (2023)The replication crisis has led to positive structural, procedural, and community changes (2023)BioContainers: an open-source and community-driven framework for software standardization (2017)Bayesian Analysis Reporting Guidelines (2021)Reproducible, scalable, and shareable analysis pipelines with bioinformatics workflow managers (2021)Multi-physics simulations using a hierarchical interchangeable software interface (2012)An environment for sustainable research software in Germany and beyond: current state, open challenges, and call for action (2021)The secret lives of experiments: Methods reporting in the fMRI literature (2012)ITK: enabling reproducible research and open science (2014)A Novel, Open Access Method to Assess Sleep Duration Using a Wrist-Worn Accelerometer (2015)Increasing value and reducing waste in research design, conduct, and analysis (2014)Reproducibility in Science (2014)An introduction to Docker for reproducible research (2015)Computational Reproducibility in Archaeological Research: Basic Principles and a Case Study of Their Implementation (2016)Description and Validation of a Computerized Behavioral Data Program: “BDataPro” (2017)Our path to better science in less time using open data science tools (2017)Good enough practices in scientific computing. (2017)A Large-Scale Study About Quality and Reproducibility of Jupyter Notebooks (2019)Text Mining Infrastructure in R (2008)A Draft Sequence of the Neandertal Genome (2010)Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences (2010)A manifesto for reproducible science (2017)Bioconda: sustainable and comprehensive software distribution for the life sciences (2018)The nf-core framework for community-curated bioinformatics pipelines (2020)
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References

  • 2004Bioconductor: open software development for computational biology and bioinformatics12,180 cited
  • 20161,500 scientists lift the lid on reproducibility4,200 cited
  • 2012Astrophysics Source Code Library2,722 cited
  • 2011Reproducible Research in Computational Science1,446 cited
  • 2014Best Practices for Scientific Computing715 cited
  • 2012The case for open computer programs537 cited
  • 2016Enhancing reproducibility for computational methods413 cited
  • 2019Towards FAIR principles for research software322 cited
  • 2010Publish your computer code: it is good enough315 cited
  • 2019How can we ensure visibility and diversity in research contributions? How the Contributor Role Taxonomy (CRediT) is helping the shift from authorship to contributorship311 cited
  • 2012A component-based approach to integrated modeling in the geosciences: The design of CSDMS304 cited
  • 2010Computational science: ...Error222 cited
  • 2017Four simple recommendations to encourage best practices in research software140 cited
  • 2022A large-scale study on research code quality and execution136 cited
  • 2018Computing environments for reproducibility: Capturing the “Whole Tale”132 cited

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  • 2018Open is not enough114 cited
  • Cited by

    • 2024ENCORE: a practical implementation to improve reproducibility and transparency of computational research11 cited