HackMD
Introduction to Git and GitHub
URL: https://hackmd.io/@k8hertweck/GitHub
Sign in to each class meeting here
Have you installed GitHub Desktop and text editor? Have you signed up for a GitHub account? Instructions here
This page is for easy access to links we'll use during class. You don't need to do anything with this information until directed by your instructor.
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Complete class notes here
Class 1: git workflow with GitHub Desktop App
- Additional help documentation: Getting started with GitHub Desktop
- Git/GitHub link from FH Biomedical Data Science Wiki
- RStudio + Git
- Challenge: BREAK until 1:43
- create a new file in your project directory named analysis.txt . Add a line of content, commit to repo.
- make a change to both analysis.txt and notes.txt . Commit both changes at once.
- Create a new folder called data . What happens when you try to commit an empty folder.
Class 2: publishing code and collaborating with GitHub
- backup repo: if you don't have yours from the previous class, download and unzip this repository (it includes the changes tracked in Git by the instructor in the previous class)
- fredhutch GitHub organization
- example repository: this course
- example repository: research
- GitHub flavored markdown
- guacamole repository
- Wiki link for GitHub at Fred Hutch
- GitHub vs GitLab
- Interested in contributing to a collaborative project?
Class 3 (optional): git command line interface
- reference for git command line
- example data analysis repository: https://github.com/fredhutchio/example_analysis_repo
- dealing with sensitive information: https://help.github.com/en/articles/removing-sensitive-data-from-a-repository
Resources for continued learning
- Learn about other courses through fredhutch.io here
- The Fred Hutch Bioinformatics and Data Science Cooperative, or Coop, hosts many community meetings and office hours about data science. Learn more information about these groups here
- Join the Coop Community Slack to talk about data science with other Hutch researchers!
- The Fred Hutch Biomedical Data Science Wiki is written by Hutch researchers and staff, and is a great place to find information about data management, bioinformatics, computing, and more.
