NEURON Hands-on Course

EXERCISES

Table of Contents

1. Lipid Bilayer

3

2. Hodgkin - Huxley axon

5

3. Ball - Stick model

7

4. Model Control : Arbitrary forcing functions

19

5. NMODL : HH type channels

23

6. HOC exercises

25

7. Working with morphometric data

35

8. Specifying inhomogeneous channel distributions with the CellBuilder

45

9. Using ModelDB and Model View

49

10. Linear Circuits : Two electrode voltage clamp

55

11. Optimizing a model

61

12. Greater performance on Multicore workstations

77

13. Networks : discrete event simulations with artificial cells

81

14. Networks : continuous simulations of nets with biophysical model cells

85

15. Hopfield Brody synchronization (sync) model

89

16. State and parameter discontinuities

97

17. Custom initialization

99

18. Analyzing electrotonus

103



Informal extras

Some useful hoc idioms

111

Vector/Matrix : Reading data

113

Vector/Matrix : Subtracting linear response

115

MyFirstNEURON by Arthur Houweling

(remote)

Model Control : Simulation families

117

Linear Circuits 2: Rectifying gap junction

123

Parallel Computing: MPI

129

Python

131


NEURON hands-on course
Copyright © 1998-2010 by N.T. Carnevale and M.L. Hines, all rights reserved.