Coding Lab
Erasmus+ · Wrocław University of Environmental and Life Sciences
Erasmus+ taught in English winter semester 2026/2027
About the course
A hands-on introduction to the Linux command line for bioinformatics. The course handbook works through eight chapters, moving from the shell and everyday text-processing tools to AWK, Bash scripting and reproducible software environments, and closing with a pipeline that turns raw biological data into a report. Each chapter ends with exercises; the final chapter is a capstone that ties the tools together.
Topics
- The Linux command line
- Overview of command-line tools
- The VIM text editor
- Biological data: databases and formats
- The AWK programming language
- Bash as a scripting language
- Software in the Linux environment (Conda, Docker)
- Writing custom scripts for biological data processing
Materials
Download both: the exercises and the capstone in the handbook work on the files in the dataset (transcripts.fa, annotation.gtf, expression.tsv and others).