Spring 2016
(Fall 2010 offering,Spring 2015 offering)

[Staff] [Discussion Forum] [Information] [Materials]


. Name Email address Office hours
Instructor Luay K. Nakhleh by appointment, DH 3119
Teaching Assistant Leo Elworth by appointment, DH 3121
Teaching Assistant Dan Ye by appointment, DH 3117

[Back to Top]

Discussion Forum

We will be using Piazza for discussions. Feel free to post questions and responses about the material covered in the lecture, homework problems, etc. However, please do not give any information that relates to your own solution for a homework problem. To go to the discussion forum, click here.
[Back to Top]

Course Information

[Back to Top]

Course Material

Course material (homework assignments, schedule of topics, slides, etc.) will be posted in this section.

Slides Set # Topic Slides Materials
1 Administrivia and background material Slides (full), Slides (handout) syllabus
2 Sequence alignment: General overview Slides (full), Slides (handout)
3 Sequence alignment: Scoring schemes Slides (full), Slides (handout)
4 Sequence alignment: Dynamic programming algorithms for pairwise alignment Slides (full), Slides (handout) homework 1 (due Feb 4)
5 Significance of estimated sequence alignments Slides (full), Slides (handout)
6 Markov chains and hidden Markov models Slides (full), Slides (handout)
7 Pairwise HMMs and sequence alignment Slides (full), Slides (handout) homework 2 (due Feb 18)
8 Profiles and multiple sequence alignments Slides (full), Slides (handout)
9 Phylogenetics: Recovering Evolutionary History Slides (full), Slides (handout)
10 Phylogenetics: Building Phylogenetic Trees Slides (full), Slides (handout) homework 3 (due Mar 29)
11 Phylogenetics: Distance-based Methods Slides (full), Slides (handout)
12 Phylogenetics: Parsimony and Likelihood Slides (full), Slides (handout) homework 4 (due Apr 12)
13 Phylogenetics: Bayesian Analysis Slides (full), Slides (handout) homework 5 (due Apr 22)

[Back to Top]