Blogs

Sound Bytes: Championing Open Science

This blog post is authored by Kourtney Burger and is cross-posted from the NOAA Fisheries Science blog. Kourtney works as a biological science technician with the SWFSC Acoustic Ecology Lab. She is responsible for the lab’s data management and general lab management and maintenance. Her current research interests include using passive acoustics monitoring as a non-invasive way to study marine mammals in their natural environments. When Kourtney’s not working, you can find her spending time outdoors and hanging out with her dog.

Continue reading

Adapting the Champions Program for the California Water Boards

Note: Openscapes began to work with and onboard mentors over the summer of 2021 while also beginning writing the Openscapes Approach Guide to help document our process. This post focuses on what the California Water Boards mentors learned in 2022 as they led their own Cohort in the agency. This was the first Cohort to be “independently led” by mentors within their own agency, we hope the first of many!

Continue reading

The why, what, and how of our NASA Openscapes cloud infrastructure: 2i2c JupyterHub and corn environment

The why, what, and how of our NASA Openscapes cloud infrastructure: 2i2c JupyterHub and corn environment I am a software engineer at the National Snow and Ice Data Center. Last month I gave a casual overview of our current cloud infrastructure set up with NASA Openscapes. The purpose was to share the why, what, and how of our setup with 2i2c JupyterHub and corn, to see how we can reuse what works and improve from other ideas.

Continue reading

Vacationing with Open Science

I’ve just taken a 2+ week vacation and truly unplugged. While this post seems a bit personal for the Openscapes blog, I wanted to share a bit about how our open science process made it possible, because one of the things we hear often from researchers is that they feel like they can’t take vacation - too much rests solely on their shoulders, solely on their laptops. And I have felt this way too, which was one reason why time off was a long time coming.

Continue reading

Aligning mission around collaborative practices, with researchers, supervisors, and IT

Note from Openscapes: This summer, we led a 2-month Champions Cohort with the National Oceanic and Atmospheric Administration (NOAA) Fisheries at the Southeast Fisheries Science Center, working with 40 staff and affiliates. These participants were from research teams, supervisors, and IT, and were interested in exploring new approaches to collaborating around complex workflows required in analyses and reports involving diverse teams, data flows, and analyses. This Cohort was organized and coordinated by Adyan Rios, Molly Stevens, and Erica Rule, following Adyan’s participation in the 2021 Fall NMFS Cohort and her leadership since, including leading Surf Sessions, feature stories, and contributing to broader NMFS-Openscapes efforts including presenting to NMFS leadership.

Continue reading

Quarto Keynote at the RStudio Conference

This is a brief post summarizing my co-keynote at rstudio::conf(2022), with Mine Cetinkaya-Rundel titled Hello Quarto: share, collaborate, teach, reimagine. All slides, demos, art, are available for reuse and remix! recording - rstudio.com/conference/2022/keynotes/collaborate-with-quarto slides - mine.quarto.pub/hello-quarto repo - github.com/mine-cetinkaya-rundel/hello-quarto art - https://twitter.com/allison_horst/status/1552693891706413056 twitter thread - https://twitter.com/juliesquid/status/1553527320308338688 At rstudio::conf(2022), I had the distinct honor to welcome folks to Quarto, which Openscapes has been using to collaborate and reimagine how we tackle inclusive environmental science & the climate crisis.

Continue reading

Learning by doing: migrating to Quarto from Bookdown

Learning by doing: migrating to Quarto from Bookdown I just had rather a lot of fun working with Ileana Fenwick to convert a book to Quarto from RMarkdown! Given that Quarto is relatively new and there’s not yet an excess of resources beyond the official docs, we’ve documented how we did it. First, what is Quarto? It is a new open-source scientific and technical publishing system, building on ten years of what RStudio learned from RMarkdown, and extends these features beyond R.

Continue reading

Hello Quarto! A Chat with NASA Openscapes, co-hosted with R-Ladies Santa Barbara

Hello Quarto! A Quarto Chat with NASA Openscapes, co-hosted with R-Ladies Santa Barbara Our 6th Openscapes Community Call co-hosted with R-Ladies Santa Barbara featured a “celebrity interview” with NASA Openscapes Mentors Amy Steiker, Catalina Oaida Taglialatela, Aaron Friesz, with J.J. Allaire, lead Quarto developer and CEO of RStudio. The conversation was led by Sam Csik of R-Ladies Santa Barbara. Quarto is an open-source scientific and technical publishing system built on Pandoc that allows users to create dynamic documents, presentations, websites, and more.

Continue reading

GitHub for supporting, reusing, contributing, and failing safely

Welcome! This illustrated series tells a story about why GitHub is so powerful for supporting, reusing, contributing, and failing safely. It is here as a blog post and also as slides to be most flexible for teaching. This complements the Tidy Data Illustrated Series and is a collaboration around open science, coding, teaching, and art. Please reuse & remix with your own communities: Download from https://github.com/allisonhorst/stats-illustrations Reuse/remix from this slide deck

Continue reading

From downloading data to Cloud access: NASA Openscapes Champions Wrap-up

In Spring 2022 we led our first NASA Openscapes Champions Cohort for research teams that work with NASA EarthData. This cohort is funded by NASA and part of our NASA Openscapes Framework project. For this Cohort, we co-led the cohort with the NASA DAAC mentors and we focused on shifting toward Open science, collaborative, reproducible practices to support research teams as they transition from the download model to the Cloud.

Continue reading