Upgrade to Pro — share decks privately, control downloads, hide ads and more …

Selfish reasons to carry out reproducible research

Dave Lunt
January 15, 2021

Selfish reasons to carry out reproducible research

Given 29 November 2019 at the Univerisity of Hull

Inspired by Markowetz F. Five selfish reasons to work reproducibly. Genome Biol. 2015;16: 274. doi:10.1186/s13059-015-0850-7

These Google slides are at https://bit.ly/35yDvIG
The slides created by me (almost all) can be considered CC0 public domain, use as you will. Some parts were created by others, I have put credit and copyright info in the speaker notes to the Google slides

Dave Lunt

January 15, 2021

More Decks by Dave Lunt

Other Decks in Research


  1. RCUK – Statement of Expectations for Postgraduate Training Students should

    receive training in experimental design and statistics appropriate to their disciplines, and in the importance of ensuring research results are robust and reproducible
  2. Ask not what you can do for reproducibility, but what

    reproducibility can do for you Florian Markowetz
  3. It will save you time and effort It will advance

    your career Selfish Reproducible Research
  4. Who here has tried to reproduce a published analysis? Who

    is most likely to reproduce your work?
  5. How can we save time, effort? eg: make figures from

    scripts this is reproducible analysis
  6. Choose a collaborator Rigorous, modern, open, with future-proof methods. Leading

    the way. Prepared and shared many of the methods you need already.
  7. Required Helps “Future You” Easier & faster, agile Easier papers

    Helps your next project Builds your career Avoid major screw-ups Makes you a cool collaborator Selfish reasons to be reproducible
  8. I’d rather do real science than tidy my data It's

    the way I’ve always done things, and I’ve got this far Excel is just fine My data and code are spread across many computers, I couldn’t do this I’ll sort this out at the end My field is too competitive, I can’t slow down to do this
  9. Butterfly_project - DATA -raw_data -fig1_data - FIGURES -fig1.pdf -fig2.pdf -table1.md

    - RESULTS -PCA -lin_regr - SCRIPTS -fig1.py - README.txt Informative names Structured Text description of what is where Spend 1 morning to organise your data Quick win => Provenance and persistence
  10. Wilkinson et al. The FAIR Guiding Principles for scientific data

    management and stewardship. Sci Data. 2016;3: 160018. doi:10.1038/sdata.2016.18 Records, Coding, Workflows, & Research Objects
  11. Make data open with a doi Findable Accessible Interoperable Reusable

    Quick win zenodo.org figshare.com osf.io For you (and for others) Yes, data can be private until you’re ready
  12. Activity All changes recorded with version control Roll back to

    previous versions Comments and collaborations
  13. try osf.io Easy to organise project Easy to store &

    publish data Easy to collaborate Easy reproducibility
  14. Quick win METHODS SECTION Experimental procedures are briefly described here

    for context, and exact protocols and reagents are detailed in doi:1234567 and doi:987654
  15. It will save you time & effort Selfish reasons to

    be reproducible Write once and iterate, faster, helps with ms, helps with reviewers, don’t start projects from scratch- build on prior reproducibility
  16. It will advance your career Selfish reasons to be reproducible

    Fast, cutting edge, future-proof, you’ll look good, more collaborators, extra citations, avoid career-ending disasters, builds a group etc etc
  17. Do not decide to be reproducible. Decide to be a

    bit more reproducible, celebrate the small wins. Spread the word. Take home message