By Lauren Buckley | January 16, 2020
Dr. Lauren Buckley spent her fall sabbatical at NCEAS, where she chatted with Julie Lowndes about her lab practices and open data science. Here she shares how she is using practices from Openscapes in her own research group at the University of Washington. Learn more about her research at faculty.washington.edu/lbuckley.
I enjoyed interacting with the Openscapes and Ocean Health Index communities during a sabbatical visit to NCEAS. My lab is increasingly working on building computational and visualization tools for translating environmental change into organismal responses (trenchproject.github.io), so tools and best practices for open and reproducible science are increasingly essential. We have been working fairly independently and haphazardly to develop lab workflows and best practices over recent years so it was gratifying and empowering to find that our workflow linking GitHub, R Studio, and Google Drive and our use of other tools including slack and R Markdown closely aligns with the Openscapes recommendations (Lowndes et al. 2017; Lowndes et al. 2019).
Interacting with the Openscapes team has facilitated a sabbatical goal of updating our lab documentation. We previously stored our workflow and best practices documentation on an internal webpage, but I was inspired by the Openscapes recommendations to move our materials to a GitHub “how_we_work” repository. I reformatted some of our existing resources as an onboarding document and adapted text from the Pinsky Lab (which was itself adapted from others in the Openscapes champions program) as an offboarding document. The offboarding document made me realize we need to do a better job of updating our README files once projects are completed. I aim for my lab to better inventory and describe each code and documentation file and to update the files with publication information. I hope the GitHub repository will lead to greater lab engagement with the materials and it will be nice to track changes over time. Suggestions for improving our materials are welcome and adapting them is encouraged!
Some future goals for our lab based on the Openscapes resources:
- Increase use of GitHub issues to track collaborative tasks, particularly for an R package we are developing.
- Hold more “Seaside Chats” discussions on data and best practices.
- More broadly, work on building lab community around open environmental data science.
- Ensure our how_we_work materials are updated and adapted for the diverse needs and backgrounds of lab members.
- Engage more with the environmental open science community via Twitter.
- And the perpetual goal of better documenting code and README files.
Thank you Openscapes and I look forward to continued interactions with the growing open environmental data science community.