Session 5: Open Data, Materials and Code 

Session Plan Session Introduction reproducibility 5 minutes Research compendia brief introduction 5 minutes Recorded talk Prof Del Ponte 20 minutes Discussions and Q&A with speaker & panel 20 minutes Hands on activity OSF 20 minutes Review and Wrap up 10 minutes Dr Francis Gacenga, A/Prof Adam Sparks 1 

Reproducibility - open data, materials & code • A growing collection of services allow researchers to conduct and present research reproducibly • Using platforms like OSF, GitHub, Binder, Code Ocean, Colaboratory, Gigantum and Nextjournal — researchers can undertake, collate and present their code, materials and data openly. Ref: https://www.nature.com/articles/d41586-019-03366-x Dr Francis Gacenga, A/Prof Adam Sparks 2 

Introduction to Research Compendia A research compendium is an artefact that accompanies, enhances, or is a scientific publication providing: • data, • code, and • Materials (documentation) for reproducing a scientific workflow. It can be published on different platforms using the label (or tag, community, ...) research-compendium (applied on GitHub, Zenodo, OSF) or as a fallback the term "research compendium" in the description (used on GitLab). Source: https://research-compendium.science Dr Francis Gacenga, A/Prof Adam Sparks 3 

Thesis Papers, Articles Posters Software Tools: Journal Conference Repositories Websites Curated Data Sets Tools: Git – Version control Citation Managers Code Tools: Notebooks e.g. R, Jupyter, Binder Docker, Reprozip, Code Ocean, Next Journal, Google Colaboratory Data Collection Data Exploration then Analysis/ Modeling/ Simulation Research Activity Planning Data Collaborate & Share Results Communication Research Project Conclusion Supporting Materials Tools: R Markdown Make Google Colaboratory Research Compendium Research Data Management Plan, pre-registration report, data analysis plan Raw Data Sets Code: Methods & Procedures Processed Data Sets Versioning Research Reports Integration of packaged elements to enable others to inspect, reproduce & extend research for distribution, managing & updating Platforms: OSF, Zenodo Github, Gigantum Research Team Findable – DOI Accessible – Open, Interoperable – Std Reusable – Re:pro Dr Francis Gacenga, A/Prof Adam Sparks 4 Research Compendia 

Source: https://twitter.com/benmarwick/status/976465491941191680 Dr Francis Gacenga, A/Prof Adam Sparks 5 Research Compendia 

Achieving Reproducibility with Research Compendia Pre-recorded presentation by Prof Emerson del Ponte Dr Francis Gacenga, A/Prof Adam Sparks 6 

Discussion • Q&A with Prof Del Ponte • Panel – Belinda Weaver, Adam, Francis and Emerson Dr Francis Gacenga, A/Prof Adam Sparks 7 

Re:produce open data, materials and code hands on creating a research compendium Download the files for the hands-on exercise Using the materials you have already downloaded Create a research compendium using OSF Dr Francis Gacenga, A/Prof Adam Sparks 8 

Review and Wrap Up Reproducible take away kit: • Session materials for reuse: http://bit.ly/reproS5 • DOI Link for our materials: https://osf.io/8cszw/ • License: University of Southern Queensland 2019 under a Creative Commons Attribution-NonCommercial 4.0 International License Dr Francis Gacenga, A/Prof Adam Sparks 9