Extremely Open Science

An experiment for 2024

In 2024, I will work on a scientific project completely in the open. I'll work on this once per week, streaming and recording the sessions. If I spend 1 hour fighting conda, then I will stream 1 hour of me fighting conda. I will discuss the results in a public mailing-list that anyone can join, and will put everything on github from the start.

The whole thing is an experiment, so I will be making it up as I go along, but everyone is welcome.

My starting question will be what antibiotic resistance genes co-occur in genomes/metagenomes and does it matter?

Why am I doing this?

1. It's probably good that I keep a project of my own instead of only supervising to make sure I don't get PI-disease. If I commit to a regular schedule, I'll do it, so I commit to one hour per week. I don’t commit to getting any particular results by the end of the year, just streaming regularly.¹

2. 2. I want to show how things are done from scratch. Sometimes junior people only see the final product from established research groups. Then, they try to do something and spend a long time dealing with minor issues and fail to realize that we all do that!

3. I'll be using our resources (e.g., GMGCv1) and tools (e.g., Jug), so I'm also dogfooding our own work.

4. I chose a scientific question where only a personal laptop/desktop computer is needed for people to follow along at home if they wish to.

To learn more

• Webpage: https://www.big-data-biology.org/extremely-open-science/

• Mailing-list: https://groups.google.com/g/extremely-open-science

• First stream is on January 29 (or 28, check your timezone)

1. It’s not always possible, but I have found it a good productivity solution to focus on how much time I work on different projects rather than specific outcomes, which are harder to predict.