Chapter 6. Sequence alignment algorithms

 Chapter 6.
6.1 what is an algorithm?
6.2 Pairwise sequence alignment - the problem
6.3 Pairwise sequence alignment - dynamic programming method
 - 6.3.1 Algorithm 1 - Global alignment with linear gap penalty
 - 6.3.2 Algorithm 2 - Local alignment with linear gap penalty
 - 6.3.3 Algorithm 3 - General gap penalty
 - 6.3.4 Algorithm 4 - Affine gap penalty
6.4 The effect of scoring parameters on the alignment
6.5 Multiple sequence alignemtn
 - 6.5.1 The progressive alignment method
 - 6.5.2 Improving progressive alignment
 - 6.5.3 Recent developements in multiple sequence alignment

chapter6-1.ppt