Course literature

We will use the book 

• Biological Sequence Analysis by Durbin, Eddy, Krogh, and Mitchison

in the course, but we will also cover topics not found in that book. 

Other peoples' lecture notes

• Ben Langmead on Burrows-Wheeler Transform and the FM index
• Michael Schatz on the Burrows-Wheeler transform.

Some relevant papers

• "Sequence Similarity Network Reveals Common Ancestry of Multidomain Proteins" by Song et al, PLoS Comp Biol, 2007.
• "Classification of DNA sequences using Bloom filters" by Stranneheim et al, Bioinformatics, 2009.