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Open Plant Pathology - BSPP Plant Health Club

Open Plant Pathology - BSPP Plant Health Club

Presentation given to the Plant Health Club of the British Society of Plant Pathology on 14 April 2023

Emerson M. Del Ponte

February 13, 2023

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  1. www.openplantpathology.org Valuing openness, transparency and reproducibility Transparency OpenPlant Pathology Open

    science Reproducibility Emerson Del Ponte (UFV, Brazil) Adam Sparks (DPIRD, Australia)
  2. How it started? Crazy idea in Jan 2018 by Adam

    Sparks and Emerson Del Ponte
  3. Our vision Open Plant Pathology (OPP) fosters a diverse community

    culture that values openness, transparency and reproducibility of scientific research data and methods applied to plant pathological research and education
  4. Educational resources Producing and sharing openly education materials Workshop materials

    Slides, video lectures, datasets, exercises, reproducible examples
  5. Collaborative coding Coding together and developing new open source tools

    https://github.com/openplantpathology - R Packages (hagis, epifitter) - Research compendia (HTML Webpage RStudio project and R Package Templates) - Interactive databases (FGSCdb)
  6. Science dissemination (during quarantine) Scheduling of FREE online scientific talks

    Virtual Seminars Live broadcast + video recording of scientific seminars in the field of Plant Pathology. Interaction with the speakers via live chat and in a Slack channel for 24 h after the talk.
  7. Reproducibility Editorship Supporting journals to promote adoption of open practices

    Brazilian Phytopathological Society Journal In 2020, a Reproducibility Team was created to support authors, reviews and editors to value data and code sharing for review and public release in permanent repositories
  8. Sparks et al. (2023) No data Upon request Paywalled Free

    access ~ 10% share data openly (most molecular) How are data/codes shared? Computational methods
  9. Tools Workflows Environments Collaborative & sharing platforms Research Project Organized

    Documented Shareable Accessible Reproducible Learn new tools and environment
  10. For group discussion … 1. Why (benefits) embrace open science

    practices? 2. What are the barriers for adopting open science? 3. What has helped you to make your research more open? 4. What should OPP/plant pathology community do to help accelerate the change?