Teaching
2015/2016
Programming Boot Camp
August 26-27
- Command line
- Introduction to command line and
sequence data analysis slides.
- Unix primer for biologists: link.
- Python
- Python,
IPython and
scientific packages can be installed via Enthought Canopy.
- Introduction to Python programming notebook.
- Codecademy interactive online course: link.
- Applications
- Scientific computing with Python
Neuroscience
Quantitative Biology I
September - October
- Problem Set 1
- Problem Set 2
Quantitative Biology II
February - April
Tue/Thur 2-4pm (unless stated otherwise below). Samet Room (Koch
building).
Nice texts on machine learning
- "Pattern recognition and machine learning"
by
C.
Bishop
- "Information theory, inference and learning
algorithms" by D. Mackay (also available free online)
| Lecture |
Lecturer |
Topic |
Links |
| 1. Feb 26 |
Siepel |
Hidden Markov Models |
slides |
| 2. Mar 3 |
Siepel |
Expectation Maximization Algorithm |
slides |
| 3. Mar 9 (2.30pm) |
Siepel |
Markov Chain Monte Carlo |
slides |
| 4. Mar 10 |
Atwal |
Variational Methods |
slides |
| 5. Mar 12 |
Koulakov |
Independent Component Analysis |
Matlab files
|
| 6. Mar 17 |
Koulakov |
Support Vector Machines |
Matlab files
|
| 7. Mar 19 |
Koulakov |
Reinforcement Learning |
Matlab files
|
| 8. Mar 24 |
Kinney |
Gaussians and Laplace Approximation |
|
| 9. Mar 26 |
Kinney |
Diagrammatic Methods |
|
| 10. Mar 31 |
Kinney |
Density Estimation |
|
| 11. Apr 2 |
Kinney |
Survival Analysis |
|
| 12. Apr 7 |
Atwal |
Model Complexity |
coin tossing notebook |
| 13. Apr 9 |
Atwal |
Ising Models |
Hopfield
network paper
bistable perception paper
neural interaction paper |
| 14. Apr 14 |
Atwal |
Biological Information Processing |
|
|
|
|
|
|
