Statistics 590C (Bioinformatics II)
Instructor:
Jeff Thorne
Monday, Wednesday, and Friday: 11:45A.M.-12:35P.M.
1220 SAS
Syllabus
Pairwise Alignment Review (file "bioinfintrolecture2023.pdf")
Lecture Notes on Markov models (pages 1-21, file "markov.pdf")
Lecture Notes on basic HMM algorithms (pages 22-28, file "markov2.pdf")
Lecture Notes on underflow (pages 29-31, file "markov3.pdf")
A tiny bit more on underflow
Lecture Notes on HMM miscellanea (pages 32-40, file "HMMmisc.pdf")
Lecture Notes on a few protein databases (pages 41-49, file "databases2023.pdf")
Slides on Protein Structure Prediction and CASP were distributed via email on Feb. 9, 2023
A quick tour of some techniques for obtaining random samples (pages 63-82, file "sampling2023.pdf")
An introduction to Gibbs Sampling pages 83-91, file "gibbs2023.pdf")
Dirichlet distribution and pseudocounts (pages 92-97, file "dirichlet2023.pdf")
A little about evolutionary models and the EM algorithm (pages 98-125, file "evomodel2023.pdf")
Slides on RNA Secondary Structure Prediction were distributed via email on April 21, 2023
Introduction / Background on Likelihood-Based Inference (file "basicbayesandml.pdf")
Homework #1
Homework #2
Homeworks #3 and #4 were distributed via email