Week | Date | Topics | Slides | Readings |
Week 1 |
Jan 12 (M) | Overview of I529 & Knowing your data |
slides (handout) |
BSA 1.1 - 1.2 BSA 11 |
Jan 14 (W) | Probabilistic modeling |
slides (handout) |
||
Jan 16 (F) | Lab 1: (Skipped) Talk | |||
Week 2 |
Jan 19 (M) | Probabilistic Modelling (contd.) | BSA 1.1 - 1.2 | |
Jan 21 (Th) | Probabilistic Modelling (contd.) | |||
Jan 23 (F) | Lab 2: Computing resources at IU | link | ||
Week 3 |
Jan 26 (M) | Frequency and Profiles | Haixu's Notes | BSA 1.1 - 1.2 |
Jan 28 (Th) | Frequency and Profiles (contd.) | |||
Jan 30 (F) | Lab 3: NCBI ORF Finder,GeneMark, Glimmer | Haixu's Notes | ||
Week 4 |
Feb 2 (M) | Markov Chains |
Haixu's notes (handout) |
BSA Chapter 4 |
Feb 4 (W) | Hidden Markov models: overview | Haixu's notes | ||
Feb 6 (F) | Lab 4: Assignment 1 released | See Oncourse | ||
Week 5 |
Feb 9 (M) | Hidden Markov models (Viterbi) | Cenk's notes |
Primer 1 BSA Chapter 4 |
Feb 11 (Th) | Hidden Markov models (Forward-Backward) | |||
Feb 13 (F) | Lab 5: group discussion on HW1 | |||
Week 6 |
Feb 16 (M) | Generalized Hidden Markov models | ||
Feb 18 (W) | HMM - Parameter Estimation | Haixu's notes | ||
Feb 20 (F) | Lab 6: HW2 Released | |||
Week 7 |
Feb 23 (M) | HMM - Parameter Estimation (Contd.) | Rabiner's paper | |
Feb 27 (F) | Lab 7: Discussion on HW2 | |||
Week 8 |
March 2 (M) | To be updated | ||
March 6 (F) | Lab 8: Wrapping up HW2 | |||
Week 9 |
March 9 (M) | To be updated | ||
March 13 (F) | Lab 9: HW3 Released | |||
Week 10 |
March 16 (M) | Spring Break: No Classes | ||
Week 11 |
March 23 (M) | Mid Terms | ||
March 27 (F) | Lab 9: HW3 Discussion | |||
Week 12 |
March 30 (M) | |||
April 3 (F) | Lab 10: HW4 Discussion | |||
Week 13 |
April 6 (M) | |||
April 10 (F) | Lab 11: HW4 Discussion | |||
Week 14 |
April 13 (M) | |||
April 17 (F) | Lab 12: HW5 Discussion | link |