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Challenges in Reproducibility, Replicability, and Comparability of Computational Models and Tools for Neuronal and Glial Networks, Cells, and Subcellular Structures
14 references·3 citing·39 second hop
Challenges in Reproducibility, Replicability, and Comparability of Computational Models and Tools for Neuronal and Glial Networks, Cells, and Subcellular Structures (2018)Challenges in Reproducibility, Replicabil…Reproducibility vs. Replicability: A Brief History of a Confused Terminology (2018)Reproducibility vs. Replicabi…Re-run, Repeat, Reproduce, Reuse, Replicate: Transforming Code into Scientific Contributions (2018)Re-run, Repeat, Reproduce, Re…Toward standard practices for sharing computer code and programs in neuroscience (2017)Toward standard practices for…Sustainable computational science: the ReScience initiative (2017)Sustainable computational sci…Reproducibility and Comparability of Computational Models for Astrocyte Calcium Excitability (2017)Reproducibility and Comparabi…A manifesto for reproducible science (2017)A manifesto for reproducible …What does research reproducibility mean? (2016)What does research reproducib…Reproducibility in Computational Neuroscience Models and Simulations (2016)Reproducibility in Computatio…1,500 scientists lift the lid on reproducibility (2016)1,500 scientists lift the lid…A long journey into reproducible computational neuroscience (2015)A long journey into reproduci…Learning from the Past: Approaches for Reproducibility in Computational Neuroscience (2013)Learning from the Past: Appro…Reproducible computational biology experiments with SED-ML - The Simulation Experiment Description Markup Language (2011)Reproducible computational bi…Minimum Information About a Simulation Experiment (MIASE) (2011)Minimum Information About a S…ModelDB: Making Models Publicly Accessible to Support Computational Neuroscience (2003)ModelDB: Making Models Public…Metanauka poznawcza: nowe podejście do badania teorii (2023)Metanauka poznawcza: nowe pod…Kinds of Replicability: Different Terms and Different Functions (2022)Kinds of Replicability: Diffe…Double trouble? The communication dimension of the reproducibility crisis in experimental psychology and neuroscience (2020)Double trouble? The communica…The Human Brain Project: neuroinformatics tools for integrating, searching and modeling multidisciplinary neuroscience data (1998)Why Are Computational Neuroscience and Systems Biology So Separate? (2008)Replicability or reproducibility? On the replication crisis in computational neuroscience and sharing only relevant detail (2018)Journal of Computational and Graphical Statistics (2014)An introduction to Docker for reproducible research (2015)Promoting an open research culture (2015)Digital open science—Teaching digital tools for reproducible and transparent research (2018)Experimenting with reproducibility: a case study of robustness in bioinformatics (2018)Reproducibility in Neuroimaging Analysis: Challenges and Solutions (2022)Policy: NIH plans to enhance reproducibility (2014)The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update (2016)A solution to minimum sample size for regressions (2020)CONSORT 2025 statement: updated guideline for reporting randomised trials (2025)CONSORT 2025 statement: updated guideline for reporting randomised trials (2025)The PRISMA Statement for Reporting Systematic Reviews and Meta-Analyses of Studies That Evaluate Health Care Interventions: Explanation and Elaboration (2009)CONSORT 2010 Statement: updated guidelines for reporting parallel group randomised trials (2010)Preferred reporting items for systematic review and meta-analysis protocols (PRISMA-P) 2015: elaboration and explanation (2015)The preregistration revolution (2018)Sustainable data analysis with Snakemake (2021)Why Most Published Research Findings Are False (2005)Why Most Published Research Findings Are False (2005)Estimating the reproducibility of psychological science (2015)Familiarity breeds content: assessing bird species popularity with culturomics (2016)Ten Simple Rules for Reproducible Computational Research (2013)Good enough practices in scientific computing. (2017)Ciw: An open-source discrete event simulation library (2018)Successes and Struggles with Computational Reproducibility: Lessons from the Fragile Families Challenge (2019)The five pillars of computational reproducibility: bioinformatics and beyond (2023)Reproducible Research in Computational Science (2011)Journal of Computational Neuroscience (2013)Open science, reproducibility, and transparency in ecology (2018)Reproducibility in machine learning for health research: Still a ways to go (2021)Reporting guidelines for simulation‐based research in social sciences (2012)Proceedings of the 2017 Winter Simulation Conference (2017)Strengthening the reporting of empirical simulation studies: Introducing the STRESS guidelines (2018)COMBINE archive and OMEX format: one file to share all information to reproduce a modeling project (2014)Reproducibility in systems biology modelling (2021)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

  • 20161,500 scientists lift the lid on reproducibility4,200 cited
  • 2017A manifesto for reproducible science3,368 cited
  • 2016What does research reproducibility mean?1,291 cited
  • 2018Reproducibility vs. Replicability: A Brief History of a Confused Terminology426 cited
  • 2011Reproducible computational biology experiments with SED-ML - The Simulation Experiment Description Markup Language257 cited
  • 2011Minimum Information About a Simulation Experiment (MIASE)168 cited
  • 2017Sustainable computational science: the ReScience initiative120 cited
  • 2003ModelDB: Making Models Publicly Accessible to Support Computational Neuroscience115 cited
  • 2017Toward standard practices for sharing computer code and programs in neuroscience111 cited
  • 2018Re-run, Repeat, Reproduce, Reuse, Replicate: Transforming Code into Scientific Contributions93 cited
  • 2016Reproducibility in Computational Neuroscience Models and Simulations70 cited
  • 2013Learning from the Past: Approaches for Reproducibility in Computational Neuroscience61 cited
  • 2017Reproducibility and Comparability of Computational Models for Astrocyte Calcium Excitability40 cited
  • 2015A long journey into reproducible computational neuroscience36 cited

Cited by

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  • 2020Double trouble? The communication dimension of the reproducibility crisis in experimental psychology and neuroscience27 cited
  • 2022Kinds of Replicability: Different Terms and Different Functions24 cited
  • 2023Metanauka poznawcza: nowe podejście do badania teorii1 cited