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NBIS Tech Group: RSE Tools

About

This repository compiles short walkthroughs on Research Software Engineering (RSE) tools useful for bioinformatics work at NBIS.

These walkthroughs are designed to be hands-on demonstrations, helping to build a shared foundation of knowledge and foster collaboration across all teams and affiliates. We aim to publish a new walkthrough every two weeks.

Tech Group Leaders

These people are responsible for organizing the sessions and maintaining this repository:

  • Mahesh Binzer-Panchal
  • Martin Dahlö
  • Lucile Soler
  • Cormac Kinsella

Where to Find the Walkthroughs

How It Works

Walkthroughs are short (~30 minutes) demonstrations, taught by volunteers from within the Tech group. The sessions are then written up and shared here for future reference as blog posts.

Target Audience

Our primary audience is NBIS staff and affiliates, both bioinformaticians and managers.

  • For Learners: Provides regular, practical training on our core technology stack.
  • For Managers: Highlights the importance of regular training and informs them of the teams' collective capabilities.

Contributing & Suggesting Walkthroughs

We use GitHub Issues to manage the walkthrough pipeline:

  1. Suggest a Topic: Create a new Issue to propose a tool or topic you'd like to see covered.
  2. Vote on Topics: Use the reactions feature 👍 to upvote topics you're interested in.
  3. Volunteer to Teach: Anyone can volunteer to prepare and demonstrate a walkthrough. You don't need to be an expert - just be willing to learn and share!
  4. Write it Up: After the demo, the walkthrough should be written up as a blog post, which will be reviewed and published here. Anyone can contribute to the write-up.

Further Discussion

Start a discussion on our Discussions page or reach out on the #tech-group-rse-tools channel on NBIS Slack.

Further Reading

Rendering the website locally

To build the website and preview your changes locally, follow these steps:

Prerequsite: You must have Pixi installed.

# Clone the repo
git clone git@github.com:NBISweden/Training-Tech-shorts.git
cd Training-Tech-shorts

# Create a new branch
# Make and commit your changes

# Install the dependencies (optional)
pixi install

# Build and serve the website in your local browser
pixi run quarto preview

quarto preview starts a local server and will watch for file changes. Use Ctrl + C to stop the server.