Lecture 21

• What was discussed in this lecture was the derivations of nucleotide substitution model. This model can also be called the nucleotide evolution model
  • The Kimura model
  • Jukes-Cantor model
  • HKY85 model

Lecture 22

• In this lecture, we are estimating substitution rates of evolution using infinitesimal rate rather than transition probability
• There was an introduction to rooted and unrooted phylogenetic tree which explains how species evolve and how they are related using evolutionary time.
• Given a sequence, we should be able to find the best tree for the sequence

Lecture 23

• The goal in this chapter is to calculate the maximum likelihood of a tree
• Bayesian for the continuous Markov model of evolution

Lecture 24

• Dirichlet distribution for scarce data

Lecture 25

• Mixture models
• Importance sampling
• Sequence importance sampling
• Importance weight
• Sequence of auxilliary distribution
• Growing a polymer

Lecture 26

• Naive method