Course Title: Linux for Bioinformatics
Course Overview: This course is designed to teach bioinformatics professionals and researchers the basics of Linux and how to use it for bioinformatics applications. The course will cover the fundamentals of the Linux command line interface (CLI) and introduce various tools and workflows commonly used in bioinformatics.
Course Outline:
Module 1: Introduction to Linux
Linux basics and history
Linux installation and environment setup
Linux file systems and directories
Basic Linux commands for file manipulation and navigation
Module 2: Linux for Bioinformatics
Introduction to bioinformatics tools and workflows
Overview of commonly used bioinformatics software packages
Understanding file formats used in bioinformatics
Installing and managing bioinformatics tools in Linux
Module 3: Working with Linux in Bioinformatics
Advanced Linux commands for bioinformatics analysis
Command-line text editors and scripting for bioinformatics workflows
Automating bioinformatics analysis with shell scripts
Creating and using pipelines for bioinformatics analysis
Module 4: Managing Data and Storage
Introduction to data storage and management in Linux
Understanding file permissions and ownership in Linux
Managing data backups and recovery
Cloud storage and virtualization for bioinformatics applications
Module 5: Collaborating and Sharing
Introduction to collaboration and sharing tools for bioinformatics
Version control with Git and GitHub
Sharing data and analysis results with web-based tools
Online communities and resources for bioinformatics collaboration
Course Requirements:
Basic understanding of bioinformatics and genetics concepts
Familiarity with working in a command-line interface
Access to a computer with a Linux operating system installed
Basic understanding of programming concepts is helpful but not required