Part 1: Pairwise Alignment Chapter 2: A History of Pairwise Alignment (blog) Chapter 3: A*PA (PDF) Chapter 4: A*PA2 (blog, PDF) Chapter 5: Semi-Global Alignment and Mapping (blog) Part 2: Low Density Minimizers (blog) Chapter 6: Theory of Sampling Schemes Chapter 7: Lower Bounds on Sampling Scheme Density Chapter 8: Practical Sampling Schemes Chapter 9: Towards Optimal Sampling Schemes Part 3: High Throughput Bioinformatics Chapter 10: Optimizing Throughput (blog) Chapter 11: SimdMinimizers (blog) Chapter 12: PtrHash (blog)