1. Programming the Khepera rat
Computational Neuroscience
NSCI 492
Spring 2008

2. Harry Howard, NSCI 492, Tulane University
Course organization
Syllabus at
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Harry Howard, NSCI 492, Tulane University

3. Review

4. Two pathways between cortex and basal ganglia
Left: Gurney I '01; right ?
cortico-basal ganglionic loop
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Harry Howard, NSCI 492, Tulane University

5. Basal ganglia as an action selection mechanism
Prescott06-Fig2.png
Our analysis of the basal ganglia intrinsic connectivity (Gurney et al., 2001a,b) indicated the presence of two off-centre, on-surround, feed-forward networks. One instantiation: (a) makes use of EP/SNr as its ‘output layer’ and is designated the selection pathway, the second (b) targets GP and is designated the control pathway. The control signals emanating from GP are evident when the two sub-systems are combined to give the overall functional architecture shown in Figure c.
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Harry Howard, NSCI 492, Tulane University

6. The robot control architecture
Prescott06-Fig5.png
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Harry Howard, NSCI 492, Tulane University

7. The basal ganglia program

8. Harry Howard, NSCI 492, Tulane University
Matlab files
intrinsic_model_ZOH.m
script that replicates the Simulink version
GPR_engine.m
function that encapsulates multiple versions of the model
ramp_output.m, DA_ramp_output.m
two different forms of the piece-wise linear output function. The latter is a modified form given in (Humphries, 2003) that captures the effects of dopamine on striatal neuron output
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Harry Howard, NSCI 492, Tulane University

9. Harry Howard, NSCI 492, Tulane University
Simulink files
intrinsicBG.mdl
Mpieclin.c, Mpieclin.dll, Mpieclin.mexlx
Mpieclin.c is the piece-wise linear output function, compiled as an S-function (called by the Simulink model) under Windows (.dll) and Linux (.mexlx)
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Harry Howard, NSCI 492, Tulane University

10. Harry Howard, NSCI 492, Tulane University
Five components
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Harry Howard, NSCI 492, Tulane University

11. Harry Howard, NSCI 492, Tulane University
Activation storage
One level of activation for each component = 5 x 1 vector
but since we want to keep track of activations, i.e. plot them over time, this vector could be a matrix with rows for units and columns for time steps
but since each component evaluates 6 channels (competing actions), we ultimately make a 6 x 1 vector for each component a_id
these activations are stored at each time step t in a 6 x t matrix/array of outputs o_id
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Harry Howard, NSCI 492, Tulane University

12. Harry Howard, NSCI 492, Tulane University
Weights
Normally, the point of a neural network simulation is to learn the weights between the components that solve the problem.
This implies a matrix of weights that represent connections between the neurons
Here, there is no learning, so the weights are stipulated as constants W_id.
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Harry Howard, NSCI 492, Tulane University

13. Harry Howard, NSCI 492, Tulane University
Processing
At each time step, loop through every channel for each unit
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Harry Howard, NSCI 492, Tulane University

14. Harry Howard, NSCI 492, Tulane University
MATLAB output graph
plot(o_GPi(1,:),'r')
plot(o_GPi(2,:),'b')
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Harry Howard, NSCI 492, Tulane University

15. The basal ganglia do preemptive multitasking
Brainwave!
The basal ganglia do preemptive multitasking

16. Harry Howard, NSCI 492, Tulane University
HumanOS
How to compare the cortico-basal ganglionic loop to the part of an OS that does preemptive multitasking/multitreading?
For instance, do the BG provide a thread life cycle with states like 'ready', 'waiting', 'running', 'blocked', 'dead', etc. ?
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Harry Howard, NSCI 492, Tulane University

17. Harry Howard, NSCI 492, Tulane University
Next time
Develop simulation for Webots
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Harry Howard, NSCI 492, Tulane University