Applied Bioinformatics of Nucleic Acid Sequences

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

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 official guide to Biopython, packed with ready-to-use code for reading sequence files, running BLAST, querying NCBI databases, and working with protein structures and phylogenies.

Jeff Chang, Brad Chapman, Peter Cock et al.

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