Linux from Scratch: Command Line Bootcamp-2
Master Linux Commands, Shell Scripting & Research Computing Workflows Essential Bioinformatics and Computational Biology Skills for Modern Life Science Research
Course Description
The Linux from Scratch: Command Line Bootcamp is designed to help life science students, researchers, and bioinformatics professionals build confidence in Linux-based environments used across academia and industry. Participants will learn Linux fundamentals, file system navigation, command-line operations, shell scripting, permissions management, and remote server access. The course focuses on practical applications of Linux in bioinformatics, genomics, transcriptomics, NGS data analysis, and computational biology. Through hands-on exercises, learners will automate repetitive tasks, manage large biological datasets, and execute bioinformatics tools efficiently. By the end of the training, participants will possess industry-relevant Linux skills essential for research laboratories, pharmaceutical companies, biotechnology organizations, and data-driven life science careers.
What You'll Learn
Linux operating system fundamentals
Command-line navigation and file management
Linux file permissions and ownership
Text processing using Linux commands
Working with biological data files
Shell scripting for automation
Remote server access using SSH
Package installation and software management
Linux workflows for bioinformatics analysis
Running NGS and genomics tools on Linux
Research computing best practices
Workflow optimization and troubleshooting
Curriculum
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Module 1: Introduction to Linux
Lesson -
What is Linux?
Lesson -
Linux Distributions
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Terminal Basics
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Module 2: Linux File System
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Directory Structure
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File Navigation
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Managing Files and Folders
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Module 3: Essential Linux Commands
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File Operations
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Search Commands
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System Information Commands
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Module 4: File Permissions
Lesson -
Users and Groups
Lesson -
Permission Management
Lesson -
Security Basics
Lesson -
Module 5: Text Processing
Lesson -
grep
Lesson -
awk
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sed
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sort and cut
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Module 6: Shell Scripting
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Bash Fundamentals
Lesson -
Variables and Loops
Lesson -
Automation Scripts
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Module 7: Remote Computing
Lesson -
SSH Access
Lesson -
File Transfer
Lesson -
Remote Server Management
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Module 8: Linux for Bioinformatics
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FASTQ and FASTA File Handling
Lesson -
Data Processing Pipelines
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Running Bioinformatics Tools
Lesson -
Module 9: Workflow Automation
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Batch Processing
Lesson -
Pipeline Management
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Productivity Techniques
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Module 10: Hands-on Project
Lesson -
Bioinformatics Workflow Setup
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Data Analysis Practice
Lesson -
Script Development
Lesson