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What is the speeding up science workshop/hackathon?
Direct quote from the organizer Holly Bik and Titus Brown: Speeding up Science" is a series of workshops focused on developing application-specific Jupyter notebooks which are executable/launchable via Binder. The goal of these workshops is to “reverse engineer” common data visualization approaches used for biological data analysis and commonly published in scientific journal articles (heatmaps, read/OTU summaries, etc.).
Here’s a link to the workshop GitHub and all the visualization workflows came from the workshop.
My Biggest joy from the workshop
- Thanks for introducing me to Binder! I love it for reproducible research as it contains not only codes but also data that is associated with the analyses. What’s better is that anyone can quickly open a built binder as long as they have Internet acess. No downloads. No installation. As easy as click a link and you get to play with published datasets or upload your data for analyses! Here’s my Binder for making heatmap and stacked bar plots
. Have a try and let me know if it works for you!
Some venting
- I wanted to learn the upstream, “heavy lifting part” of the analysis (e.g. How to make MAGs?) but just ended up coding the visualization, which I already do on a daily basis.
- In all, I would say this workshop/hackathon is more for harnessing your skills instead of picking up a new one.
- P.S. I went to the 1st ever event, which means that future events may undergo dramatic changes.
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