OpenVaccine Machine Learning Workshop Recap – May 11, 2022

This week we hosted a free Kaggle OpenVaccine Machine Learning workshop. The notebook is based on a Kaggle project that leverages data science to develop models and design rules for RNA degradation. The model predicts the likely degradation rates at each base of an RNA molecule, trained on a subset of an Eterna dataset comprising over 3000 RNA molecules (which span a panoply of sequences and structures) and their degradation rates at each position. In this blog post we’ll recap some highlights from the workshop. Ok, let’s dig in.


First, thanks for voting for your favorite charity!

With the unprecedented circumstances facing our global community, Arrikto is looking for even more ways to contribute. With this in mind, we thought that in lieu of swag we could give workshop attendees the opportunity to vote for their favorite charity and help guide our monthly donation to charitable causes. The charity that won this workshop’s voting was the Fellowship Housing. The mission of Fellowship Housing is to empower single moms to build a new legacy. They do this through a two-year transitional housing program that focuses on accountability and a path to independence. We are pleased to be making a donation of $100 to them on behalf of the workshop attendees. Again, thanks to all of you who attended and voted!


What topics were covered in the workshop?


  • Kubeflow Overview
  • Notebook Basics
  • Getting the OpenVaccine Notebook Up and Running
  • Exploring the OpenVaccine Notebook 
  • Pipeline Basics
  • Running the OpenVaccine Pipeline
  • Hyperparameter Tuning


What did I miss?

Here’s a short teaser from the 45 minute workshop where Jimmy walked folks through how to perform hyperparameter tuning via Kubeflow’s Katib component on the OpenVaccine example.



Want to see more? Here’s the YouTube playlist of all the demos featured in the workshop.


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Try the OpenVaccine Example for Yourself

If you’d like to work through the OpenVaccine notebook yourself, check out the guided tutorial on Arrikto Academy.


Need help?

Join the Kubeflow Community on Slack and make sure to add the #minikf channel to your workspace. The #minikf channel is your best resource for immediate technical assistance regarding all things MiniKF!


Missed the May 11 workshop?

If you were unable to join us this week, but would still like to attend a workshop in the future, register for one of these upcoming workshops.


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