Reading and Discussion topics

1/8

Linear Algebra

some logistics

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)

Linear Algebra:

Discussion

linear algebra tutorial normrnd PlotVector Plot3DVector statsizechk

note: you need all five files; make sure they are all on Matlab's path. You may already have normrnd and statsizechk if you have the statistics toolbox.

Markov chain slides (optional part of tutorial)

Journal club:

Wandell, Foundations of Vision, Chapter 4
Baylor, Nunn and Schnapf (1987) J Physiol 390:145-160.

Journal club:

http://graphics.stanford.edu/courses/cs178/applets/colormatching.html

1/22

Differential equations and neural dynamics

Howard Berg, Random Walks in Biology, Appendix B
Hugh Wilson, Spikes, Decisions and Actions, Chapters 1, 2, 3
Wilson, Chapter 5 (numerical methods)

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Differential equations and neural dynamics: Discussion

tutorial

Simulink tutorial (optional)

Journal club:

Robinson

Fuchs, Scudder and Kaneko

Journal club:

Supplementary material:

Villus material part 1

Villus material part 2

Villus material part 3

simulink model (works on Matlab 5)

Introduction to the Theory of Stochastic Processes

Howard Berg, Random Walks in Biology, Appendix A
Koch, Chapter 15
Duda, Hart and Stork, Pattern Classification (2nd edition), Appendix 4

probability basics tutorial

Introduction to the Theory of Stochastic Processes: Discussion

Stochastic Processes Tutorial

accessory files (note: 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

kemeny_snell_ch1

kemeny_snell_ch2

Journal club:

Pillow et al (primary paper for discussion)

Truccolo et al.

Journal club:

Fourier Analysis, Filters and Convolution

Press et al., Numerical Recipes, pages 496-508 (2nd edition, this is beginning of Ch. 12); Ch. 13
Koch, Biophysics of Computation, Appendix B
Wandell, Foundations of Vision, Appendix A (a mix of linear algebra and linear systems stuff).

Fourier Analysis, Filters and Convolution: Discussion

Fourier analysis tutorial

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).

linear systems primer from David Heeger

Partha Mitra’s open source Matlab code for spectral analysis, with links to online tutorials: http://chronux.org/home/

spectral analysis notes from Kleinfeld

Journal club:

Hubel-Wiesel direction selective

Hubel-Wiesel RGC

Hubel-Wiesel orientation selective

papers for discussion:

Movshon, 1978a

Movshon, 1978b

Journal club:

PCA tutorial

Shlens PCA review

rgc spike data

single photon response data

Journal club:

Yang Dan complex cell paper (primary discussion paper)

Simoncelli chapter (good intro to PCA and friends)

Golomb LGN paper

Journal club:

Horwitz V1 paper