Class activities will be recorded here.

This page will shortly have the entire plan for the semester. For weeks in the future, consider it a plan subject to change. For weeks in the past consider it a record of what we have done. As for the current week, keep a watch for updates and changes.

Week 1 : January 17,19
  • Tuesday
    Course introduction (pdf)
    Thursday
    Some more biology (pdf)
Week 2 : January 24,26
  • Tuesday
    Some more biology (pdf)
    Thursday
    Sequence alignment (pdf)
Week 3 : January 31,February 2
Week 4 : February 7,9
  • Tuesday
    RNA folding (pdf)
    Thursday
    RNA folding (pdf)
Week 5 : February 14,16
Week 6 : February 21,23
  • Tuesday
    Hidden Markov Models and applications (pdf)
    Thursday
    Hidden Markov Models and applications (continued)
Week 7 : February 28,March 2
  • Tuesday
    Hidden Markov Models and applications (continued)
    Assignment 3
    Thursday
    Hidden Markov Models and applications (continued)
Week 8 : March 7,9
  • Tuesday
    Midterm
    Thursday
    Midterm solution
Week 9 : Spring break
Week 10 : March 21,23
  • Tuesday
    Introduction to DNA sequencing (pdf)
    Thursday
    Introduction to DNA sequencing (continued)
Week 11 : March 28,30
  • Tuesday
    Applications of DNA sequencing (pdf)
    Thursday
    Read mapping: Burrows-Wheeler transform and FM index (pdf)
Week 12 : April 4,6
Week 13 : April 11,13
Week 14 : April 18,20
  • Tuesday
    Sequence assembly (continued) (pdf)
    Thursday
    Single-cell sequencing and assembly (pdf)
    Quiz 2
Week 15 : April 25,27
  • Tuesday
    Single-cell sequencing and assembly (continued) (pdf)
    Thursday
    Multiple sequence alignment (pdf)
    Assignment 6
Week 16 : May 2,4
  • Tuesday
    Multiple sequence alignment (continued) (pdf)
    Thursday
    Genome rearrangements (pdf)
Week 17 : Finals