CoSMo 2018
This page contains course materials for the CoSMo 2018 summer school.
Contents
Introduction
Jul 30 - Aug 4
Lecturers: Gunnar Blohm, Paul Schrater, Konrad Kording
Day 1 - Overview of modeling in neuroscience
CoSMo 2018 organizational slides
Konrad's and Gunnar's model pitches
Paul's multiple learning pitch
Paul's optimal forgetting pitch
Paul's deep learning bottleneck pitch
Paul's minimum intervention principle pitch
Afternoon tutorial 1: plotting neural data
Here is the file [Stevenson Data Set]
As part of the tuning curve exercise we will understand it.
Tutorial is available here
Afternoon tutorial 2: gain modulation for reference frame transformations
The goal of this tutorial is to understand how gain modulation can be used for reference frame transformations and how gain modulation can emerge from training a simple artificial neural network carrying out reference frame transformations.
There are 2 different approaches to solving this:
- exact determination of read-out weights from eye-position gain-modulated neurons as in this seminal paper. Here the solution can be found by computing the least-square optimal set of weights mapping the gain-modulated neurons (population code) to head-centered output neuron(s). For this to work, population code neurons need to be of the exponential function family.
- training a neural network to perform reference frame transformations using this code. For this you can plot each individual neuron's receptive field for different eye positions and analyze how the receptive field changes with eye position in each network layer.
Day 2 - Bayesian approaches
Bayesian perception - an introduction: a tremendous book written by Wei Ji Ma, Konrad Kording, Daniel Goldreich
Morning lectures & tutorial
Konrad's Bayesian decoding and multi-sensory integration tutorials are available
here (in folder day 2)
Afternoon lectures & tutorials
Dropbox link to Paul's slides and tutorial (in sub-folder decision_tutorial)
How to model tutorial
Modeling 101 slides
Day 3 - Linear systems and Kalman filtering
Morning: Linear systems (saccades)
Linear systems theory lecture
Eye movement tutorial and a possible solution for both time and frequency domain modelling
van Opstal syllabus - linear systems theory: a great syllabus developed by John van Opstal for CoSMo on using linear systems to model gaze control with theory, exercises and answers to exercises
Afternoon: Kalman filtering
Dropbox link to Paul's slides and tutorial (in sub-folder Kalman_lecture_tutorial)
Day 4 - Motor control
Morning: optimal control
Control slides
Matlab control tutorial files
Afternoon: Paper writing 101
Individual abstract writing document
Konrad's PLoS CB 10 simple rules paper on how to structure papers
Evening: causality in neuroscience
Konrad's discussion slides and tutorials on causality in neuroscience can be found here (in sub-folder causality)
Day 5 - Optimality
Can a neuroscientist understand a mirco-chip?
Konrad's article discussing this is published here
BADS model fitting
Lecturer: Luigi Acerbi
Luigi's slides
Here is the link to Luigi's tutorial files on Github.
Day 6 - machine learning
Konrad's tutorial on machine learning for neuroscience can be found here (in sub-folder ML)
Motor control
Aug 6 - 7
Lecturers: Alaa Ahmed, Frederic Crevecoeur, Reza Shadmehr
Alaa's and Reza's first day materials
Reza's neural prelude to movement slides
Alaa's PM tutorial
Reza's neural coding in the cerebellum slides
Reza's reaction time slides
Alaa's slides (all in one deck)
Fred's control tutorial
Lecture slides and further readings
Tutorial instructions and associated Matlab script
The Bayesian Brain
Aug 8 - 9
Lecturers: Megan Peters & Larry Maloney
Day 1
Larry's introductory lecture
Larry's first tutorial
Second lecture from Larry
Second set of exercises from Larry
Day 2
Larry's third lecture slides
Larry's 4th slide deck
Larry's last set of slides
Open Science & other discussions
Aug 9
Group Projects
Jul 30 - Aug 11
Instructions: Every group will have a 30min slot (20min presentation, 10min questions). The research question, hypotheses and rationale for the choice of the approach should be clearly presented. Models, simulations, results, discussion etc should be detailed enough for everyone to follow.
Best group gets a free 10min talk at Advances in Motor Control and Motor Learning 2018 (SfN satellite workshop)!!! (confirmed by John Krakauer & Maurice Smith)
The winner has to apply too and specify you are CoSMo 2018 project winner...
PROJECT PRESENTATIONS (Sat, Aug 11)
Presentations will take place 1-6pm in Bruininks Hall Room 512B
Presentation template PowerPoint file
