| Audience | Computational skills required | Duration |
|---|---|---|
| Biologists | None | 2-hour workshop (~2 hours of trainer-led time) |
This repository has teaching materials for a 2 hour, hands-on Introduction to the command-line interface workshop led at a relaxed pace.
Many data analysis tools and computational resources require users to have a basic working knowledge of the command line interface (also referred to as UNIX, Linux, bash, shell). In this workshop participants will learn basic commands for navigating the file system, exploring file contents, and performing basic operations, such as moving, copying, and renaming files/folders.
- Accessing the bash shell: Understanding how to start up the command-line interface
- Navigating the file directory: Recognizing the organization of the file directory and exploring the folders/files
- Performing file operations: Understanding ways to manipulate files, such as moving, copying, and renaming files
- Exploring file contents: Learning how to look at the contents of files
- Finding help: Utilizing resources to determine how to specify desired commands
- Searching files: Practicing searching for patterns within files
- Redirecting output: Using redirection operators to create new files, append contents to an already existing file, and combining commands together
These materials are developed for a trainer-led workshop, but also amenable to self-guided learning.
| Lessons | Estimated Duration |
|---|---|
| Introduction to the command line | 75 min |
| Searching and redirection | 45 min |
Introduction to Shell: Dataset
Mac users: No installation requirements.
Windows users: GitBash
These materials have been developed by members of the teaching team at the Harvard Chan Bioinformatics Core (HBC). These are open access materials distributed under the terms of the Creative Commons Attribution license (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.