Edit History

Wiki » History » Version 15

Vitor Chaud, 30 Apr 2014 14:57

1 1 Padraig Gleeson 
Introduction
2 7 Padraig Gleeson 
------------
3 1 Padraig Gleeson 





    4
    7
    Padraig Gleeson
    
This project will contain examples of the Izhikevich spiking neuron model.





    5
    1
    Padraig Gleeson
    





    6
    8
    Padraig Gleeson
    
### Installation





    7
    7
    Padraig Gleeson
    





    8
    1
    Padraig Gleeson
    
To get local clone of this project…





    9
    7
    Padraig Gleeson
    





    10
    8
    Padraig Gleeson
    
### Versions of the project





    11
    7
    Padraig Gleeson
    





    12
    7
    Padraig Gleeson
    
The original model in [MATLAB format](http://izhikevich.org/publications/figure1.m) has been converted to a number of other formats.





    13
    7
    Padraig Gleeson
    





    14
    8
    Padraig Gleeson
    
#### PyNN





    15
    1
    Padraig Gleeson
    





    16
    7
    Padraig Gleeson
    
…





    17
    7
    Padraig Gleeson
    





    18
    7
    Padraig Gleeson
    
Tested with simulators: NEURON…





    19
    7
    Padraig Gleeson
    





    20
    8
    Padraig Gleeson
    
#### NeuroML 2





    21
    7
    Padraig Gleeson
    





    22
    7
    Padraig Gleeson
    
…





    23
    7
    Padraig Gleeson
    





    24
    7
    Padraig Gleeson
    
The XML for an Izhikevich model in NeuroML v2.0 is below:





    25
    7
    Padraig Gleeson
    





    26
    1
    Padraig Gleeson
    
    <code class="xml">





    27
    1
    Padraig Gleeson
    
    <izhikevichCell id="TonicSpiking" v0 = "-70mV" thresh = "30mV" a ="0.02" b = "0.2" c = "-65.0" d = "6" Iamp="0" Idel="0ms" Idur="2000ms"/></code>





    28
    1
    Padraig Gleeson
    





    29
    1
    Padraig Gleeson
    
For full examples of single cells see [TonicSpiking](/projects/izhikevichmodel/repository/entry/neuroConstruct/cellMechanisms/TonicSpiking/TonicSpiking.nml) or [PhasicBursting](/projects/izhikevichmodel/repository/entry/neuroConstruct/cellMechanisms/PhasicBursting/PhasicBursting.nml)





    30
    1
    Padraig Gleeson
    





    31
    1
    Padraig Gleeson
    
Tested with simulators: …





    32
    8
    Padraig Gleeson
    





    33
    8
    Padraig Gleeson
    
### Comparison to original model behaviour





    34
    8
    Padraig Gleeson
    





    35
    8
    Padraig Gleeson
    
table{border:1px solid black}.





    36
    15
    Vitor Chaud
    
{background:\#ddd}. |**Model**|&nbsp;&nbsp;&nbsp;&nbsp; **Label** &nbsp;&nbsp;&nbsp;&nbsp; |&nbsp;&nbsp;&nbsp;&nbsp; **PyNN** &nbsp;&nbsp;&nbsp;&nbsp; | &nbsp;&nbsp;&nbsp;&nbsp; **NeuroML** &nbsp;&nbsp;&nbsp;&nbsp; |





    37
    15
    Vitor Chaud
    
|Tonic spiking | &nbsp;&nbsp;&nbsp;A |(a) | &nbsp;&nbsp;&nbsp;(a) |





    38
    15
    Vitor Chaud
    
|Phasic spiking| &nbsp;&nbsp;&nbsp;B |(a) | &nbsp;&nbsp;&nbsp;(a) |





    39
    15
    Vitor Chaud
    
|Tonic bursting| &nbsp;&nbsp;&nbsp;C |(b) | &nbsp;&nbsp;&nbsp;(b) |





    40
    15
    Vitor Chaud
    
|Phasic bursting| &nbsp;&nbsp;&nbsp;D |(a) | &nbsp;&nbsp;&nbsp;(a) |





    41
    15
    Vitor Chaud
    
|Mixed mode| &nbsp;&nbsp;&nbsp;E |(a) | &nbsp;&nbsp;&nbsp;(a) |





    42
    15
    Vitor Chaud
    
|Spike freq. adapt.| &nbsp;&nbsp;&nbsp;F |(a) | &nbsp;&nbsp;&nbsp;(a) |





    43
    15
    Vitor Chaud
    
|Class 1 excitable| &nbsp;&nbsp;&nbsp;G |(d, e)| &nbsp;&nbsp;&nbsp;(a, e) |





    44
    15
    Vitor Chaud
    
|Class 2 excitable| &nbsp;&nbsp;&nbsp;H |(d)| &nbsp;&nbsp;&nbsp;© |





    45
    15
    Vitor Chaud
    
|Spike latency | &nbsp;&nbsp;&nbsp;I |(b)| &nbsp;&nbsp;&nbsp;(b) |





    46
    15
    Vitor Chaud
    
|Subthresh. osc.| &nbsp;&nbsp;&nbsp;J |(a)| &nbsp;&nbsp;&nbsp;(a) |





    47
    15
    Vitor Chaud
    
|Resonator| &nbsp;&nbsp;&nbsp;K |(a)| &nbsp;&nbsp;&nbsp;(a) |





    48
    15
    Vitor Chaud
    
|Integrator| &nbsp;&nbsp;&nbsp;L |(e)| &nbsp;&nbsp;&nbsp;(a, e) |





    49
    15
    Vitor Chaud
    
|Rebound spike| &nbsp;&nbsp;&nbsp;M |(a)| &nbsp;&nbsp;&nbsp;(a) |





    50
    15
    Vitor Chaud
    
|Rebound burst| &nbsp;&nbsp;&nbsp;N |(a)| &nbsp;&nbsp;&nbsp;(a) |





    51
    15
    Vitor Chaud
    
|Threshold variability| &nbsp;&nbsp;&nbsp;O |(a)| &nbsp;&nbsp;&nbsp;(a) |





    52
    15
    Vitor Chaud
    
|Bistability| &nbsp;&nbsp;&nbsp;P |(b)| &nbsp;&nbsp;&nbsp;(b) |





    53
    15
    Vitor Chaud
    
|Depolarizing after-potential| &nbsp;&nbsp;&nbsp;Q |(b)| &nbsp;&nbsp;&nbsp;(b) |





    54
    15
    Vitor Chaud
    
|Accomodation| &nbsp;&nbsp;&nbsp;R |(d)| &nbsp;&nbsp;&nbsp;(a)|





    55
    15
    Vitor Chaud
    
|Inhibition-induced spiking| &nbsp;&nbsp;&nbsp;S |(a)| &nbsp;&nbsp;&nbsp;©|





    56
    15
    Vitor Chaud
    
|Inhibition-induced bursting| &nbsp;&nbsp;&nbsp;T |(b) | &nbsp;&nbsp;&nbsp;(f)|