Applied-Bioinformatics

Student course material for the Applied Bioinformatics course at Scripps Research for fall 2018.

Prerequisites

The only requirement is that you have access to a latop running Windows 10 or macOS, and that you complete the installation/configuration instructions.

Course materials

Module 1: Bash, Juypter and git

1.1 Course intro:

• slides

1.2 Bash basics

• slides

1.3 Jupyter basics

• slides
• notebook

1.4 File manipulation

• slides
• notebook

1.5 Redirection and pipes

• slides
• notebook

1.6 awk

• slides
• notebook

1.7 git

1.8 looping

Module 2: R

Module 3: RNA-seq

Module 4: ChIP-seq

Module 5: Single cell RNA-seq