Quantitative methods in neuroscience
NeuBeh 545/PBIO 545
Tu/Th 12-1:20, T478 HSB
| Date | Topic and Handouts | Reading and Discussion topics |
| 1/4 |
linear algebra primer from Eero Simoncelli Linear transformations on Wikipedia Column space demo from class (note: requires some files from linear algebra tutorial - get those first) |
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| 1/9 | Linear Algebra: Discussion |
linear algebra tutorial normrnd PlotVector Plot3DVector note: you need all four files; make sure they are all on Matlab's path. You may already have normrnd if you have the statistics toolbox. |
| 1/11 | Journal club: Tony, Tade |
Wandell, Foundations of Vision, Chapter 4 |
| 1/16 |
Fourier Analysis, Filters and Convolution | Press et al., Numerical Recipes, pages 496-508
(2nd edition, this is beginning of Ch. 12); Ch. 13 |
| 1/18 |
Fourier Analysis, Filters and Convolution: Discussion
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linear systems primer from Eero Simoncelli (note this is not the same as the linear algebra one above - has a lot of Fourier stuff in it). |
| 1/23 | Journal club: Tess, Peter, Joanna, Scott G |
papers for discussion: |
| 1/25 | Journal club:
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| 1/30 | Differential equations and neural dynamics
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Howard Berg, Random Walks in Biology, Appendix B |
| 2/1 | Differential equations and neural dynamics: Discussion |
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| 2/6 | Journal club: Ryan, Scott V, Dave, Philipp
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| 2/8 | Journal club:
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Supplementary material: |
| 2/13 | Introduction to the Theory of Stochastic Processes
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Berg, Apendix A |
| 2/15 | Introduction to the Theory of Stochastic Processes: Discussion
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Stochastic Processes Tutorial (note: you need all four files in this folder; make sure they are all on Matlab's path) Moment generating functions tuturial (you need both files in folder) Kemeny and Snell, Finite Markov Chains |
| 2/20 | Journal club: Stavros, Jess, Jon, Elisabeth
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Shadlen and Newsome, Current Opinion (primary paper for discussion) |
| 2/22 | Journal club:
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| 2/27 | PCA and Dimensional Reduction | PCA tutorial (note: you need all four files in this folder; make sure they are all on Matlab's path) |
| 3/1 | PCA and Dimensional Reduction: Discussion | |
| 3/6 | Journal club: Kate, Charlie, Shanti |
Simoncelli chapter (good intro to PCA and friends)
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| 3/8 | Journal club:
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Instructors and contact info:
| Adrienne Fairhall | fairhall@u.washington.edu |
| Fred Rieke | rieke@u.washington.edu |
| Mike Shadlen | shadlen@u.washington.edu |
| Roozbeh Kiani | roozbeh@u.washington.edu |
| Brian Lundstrom | lundbr@u.washington.edu |
Course project:
Computers, etc:
Computers with MATLAB are available in the PBIO computer room and the NeuBeh office.
Contact one of us if you are having problems finding a machine you can use.
Useful links:
site for Theoretical Neuroscience, Dayan and Abbott (see Exercises)
Mathematical details of Fourier analysis from Wolfram Research