Biopython Tutorial and Cookbook

A beginner course from the National Cancer Institute that takes you from your first Unix commands to a full RNA-Seq analysis and pathway interpretation. No prior coding experience needed.

Alexandra L. Emmons and Joe Wu

Learn to work with DNA and RNA sequences using Python, Biopython, and the command line. Covers file formats, sequence alignment, genome browsers, and next-generation sequencing data.

David A. Hendrix

A friendly introduction to analyzing DNA and protein sequences in R. You retrieve sequences from online databases, compute GC content, align sequences, and build phylogenetic trees.

Avril Coghlan

The open textbook of an MIT course on the algorithms behind genomics. Covers sequence alignment, hidden Markov models, gene finding, regulatory networks, and molecular evolution.

Manolis Kellis