Tutorials

Here is a non-exhaustive list of tutorials and useful background reading

Unix command line

• Bash Scripting Tutorial for Beginners
• Speciation & Population Genomics: Getting used to Unix
• Software Carpentry: The Unix shell
• Cornell CBSU Workshop: Linux for biologist

NGS data

• Speciation & Population Genomics: Raw reads exploration
• Cornell CBSU Workshop: Genomic sequence data analysis

RMarkdown / Quarto

• Using Quarto

Git and GitHub

• The basics
• Version Control w/ Git Tutorial

Genome assembly

• MaSuRCA Quick Start Guide
• Flye Install, Usage, and FAQs
• Carl’s assembly notes in progress