SZodixStudyAcademic Library
ShelvesOpen access
Study · an open academic library·Metadata from OpenAlex (CC0)·Shelves·OpenAlex metadata, de-duplicated
Scientific Software Development Is Not an Oxymoron
3 references·16 citing·41 second hop
Scientific Software Development Is Not an Oxymoron (2006)Scientific Software Development Is Not an…Statistical Analyses and Reproducible Research (2007)Statistical Analyses and Repr…Bioconductor: open software development for computational biology and bioinformatics (2004)Bioconductor: open software d…Design Patterns: Elements of Reusable Object-Oriented Software (1994)Design Patterns: Elements of …Challenges and recommendations to improve the installability and archival stability of omics computational tools (2019)Challenges and recommendation…Bionitio: demonstrating and facilitating best practices for bioinformatics command-line software (2019)Bionitio: demonstrating and f…Ten Simple Rules for Developing Usable Software in Computational Biology (2017)Ten Simple Rules for Developi…So You Think You Can Model? A Guide to Building and Evaluating Archaeological Simulation Models of Dispersals (2015)So You Think You Can Model? A…Rampant software errors may undermine scientific results (2015)Rampant software errors may u…Engineering bioinformatics: building reliability, performance and productivity into bioinformatics software (2015)Engineering bioinformatics: b…Best publishing practices to improve user confidence in scientific software (2015)Best publishing practices to …Rampant software errors undermine scientific results (2014)Rampant software errors under…Current Practice in Software Development for Computational Neuroscience and How to Improve It (2014)Current Practice in Software …Opportunities and Challenges for the Life Sciences Community (2012)Opportunities and Challenges …A toolbox for developing bioinformatics software (2011)A toolbox for developing bioi…Database Analysis of Simulated and Recorded Electrophysiological Datasets with PANDORA’s Toolbox (2009)Database Analysis of Simulate…A Quick Guide to Organizing Computational Biology Projects (2009)A Quick Guide to Organizing C…G-Node: An integrated tool-sharing platform to support cellular and systems neurophysiology in the age of global neuroinformatics (2008)G-Node: An integrated tool-sh…Interoperability of Neuroscience Modeling Software: Current Status and Future Directions (2007)Interoperability of Neuroscie…Beyond standardization: dynamic software infrastructures for systems biology (2007)Beyond standardization: dynam…A Pattern Language (1977)The Anatomy of a Design Theory (2007)Socio-technical systems: From design methods to systems engineering (2010)Kepler: An Extensible System for Design and Execution of Scientific Workflows (2004)The Fourth Paradigm: Data-Intensive Scientific Discovery (2009)Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences (2010)AUTOPILOT: Automating experiments with lots of Raspberry Pis (2019)Improving bioinformatics software quality through incorporation of software engineering practices (2022)Not just for programmers: How GitHub can accelerate collaborative and reproducible research in ecology and evolution (2023)Ann Arbor, Michigan (1969)The Human Brain Project: neuroinformatics tools for integrating, searching and modeling multidisciplinary neuroscience data (1998)Review of Papers Describing Neuroinformatics Software (2009)NeuroManager: a workflow analysis based simulation management engine for computational neuroscience (2015)Integrating the Allen Brain Institute Cell Types Database into Automated Neuroscience Workflow (2017)WaveLab and Reproducible Research (1995)Accessible Reproducible Research (2010)Computational Reproducibility in Archaeological Research: Basic Principles and a Case Study of Their Implementation (2016)Binder 2.0 - Reproducible, interactive, sharable environments for science at scale (2018)Making scientific computations reproducible (2000)ModelDB: Making Models Publicly Accessible to Support Computational Neuroscience (2003)Learning from the Past: Approaches for Reproducibility in Computational Neuroscience (2013)Reproducibility and Comparability of Computational Models for Astrocyte Calcium Excitability (2017)The role of product architecture in the manufacturing firm (1995)Taverna: a tool for the composition and enactment of bioinformatics workflows (2004)Solutions for data integration in functional genomics: a critical assessment and case study (2008)Work flows in life science (2009)Galaxy: A platform for interactive large-scale genome analysis (2005)Snakemake—a scalable bioinformatics workflow engine (2012)Ten Simple Rules for Reproducible Computational Research (2013)Ten simple rules for documenting scientific software (2018)Improving the usability and archival stability of bioinformatics software (2019)A Practical Guide to Metabolomics Software Development (2021)Big Data: Astronomical or Genomical? (2015)Bioconda: sustainable and comprehensive software distribution for the life sciences (2018)Successes and Struggles with Computational Reproducibility: Lessons from the Fragile Families Challenge (2019)The five pillars of computational reproducibility: bioinformatics and beyond (2023)Robust Modeling in Cognitive Science (2019)A Beginner's Guide to Conducting Reproducible Research (2021)Eleven quick tips for data cleaning and feature engineering (2022)Text Mining Infrastructure in R (2008)A Draft Sequence of the Neandertal Genome (2010)
this work references cited by second hop

References

  • 1994Design Patterns: Elements of Reusable Object-Oriented Software21,704 cited
  • 2004Bioconductor: open software development for computational biology and bioinformatics12,180 cited
  • 2007Statistical Analyses and Reproducible Research349 cited

Cited by

  • 2009A Quick Guide to Organizing Computational Biology Projects95 cited
  • 2019Challenges and recommendations to improve the installability and archival stability of omics computational tools90 cited
  • 2017Ten Simple Rules for Developing Usable Software in Computational Biology84 cited
  • 2007Interoperability of Neuroscience Modeling Software: Current Status and Future Directions70 cited
  • 2007Beyond standardization: dynamic software infrastructures for systems biology68 cited
  • 2015Rampant software errors may undermine scientific results47 cited
  • 2009Database Analysis of Simulated and Recorded Electrophysiological Datasets with PANDORA’s Toolbox39 cited
  • 2015So You Think You Can Model? A Guide to Building and Evaluating Archaeological Simulation Models of Dispersals39 cited
  • 2014Current Practice in Software Development for Computational Neuroscience and How to Improve It37 cited
  • 2012Opportunities and Challenges for the Life Sciences Community31 cited
  • 2008G-Node: An integrated tool-sharing platform to support cellular and systems neurophysiology in the age of global neuroinformatics

Only edges whose both ends are imported exist here. Widen the year window, or show the whole map. Back to the work

30 cited
  • 2015Engineering bioinformatics: building reliability, performance and productivity into bioinformatics software28 cited
  • 2011A toolbox for developing bioinformatics software24 cited
  • 2015Best publishing practices to improve user confidence in scientific software24 cited
  • 2019Bionitio: demonstrating and facilitating best practices for bioinformatics command-line software20 cited
  • 2014Rampant software errors undermine scientific results19 cited