Applied Bioinformatics 2025
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About
Source Code
Report a Bug
Version control & documentation
git pull requests
Home
Preparations
Server accounts
Visual Studio Code
Server access
Command line
screen session
Quarto
git and GitHub
Why this course?
course_intro.qmd
Reproducible bioinformatics
Version control & documentation
git pull requests
Quarto blog
GitHub actions
Working with environments
Pixi
QC with Pixi
Bonus: Python in Pixi
Working with containers
Apptainer
Workflow manager
Pipelines
nf-core
Test nf-core
Use nf-core
Miscellaneous
ggplot
AI in bioinformatics
Version control & documentation
git pull requests
Using git collaboratively
This module will be run by Sam, and he has his own slides and content on Canvas.