Wiki » History » Version 12
Padraig Gleeson, 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 | 10 | Vitor Chaud | {background:\#ddd}. |**Model**|**Label** |**PyNN** |**NeuroML** | **Comments** | |
| 37 | 11 | Padraig Gleeson | |Tonic spiking | A |OK | OK || |
| 38 | 11 | Padraig Gleeson | |Phasic spiking| B |OK | OK || |
| 39 | 11 | Padraig Gleeson | |Tonic bursting| C |OK | OK || |
| 40 | 11 | Padraig Gleeson | |Phasic bursting| D |OK | OK || |
| 41 | 11 | Padraig Gleeson | |Mixed mode| E |OK | OK || |
| 42 | 11 | Padraig Gleeson | |Spike freq. adapt.| F |OK | OK || |
| 43 | 12 | Padraig Gleeson | |Class 1 excitable| G |not yet implemented| OK (although new ComponentType [generalizedIzhikevichCell](https://github.com/OpenSourceBrain/IzhikevichModel/blob/master/NeuroML2/GeneralizedIzhikevichCell.xml) required)| Different model parameterization | |
| 44 | 11 | Padraig Gleeson | |Class 2 excitable| H |not yet implemented| OK || |
| 45 | 12 | Padraig Gleeson | |Spike latency | I |OK| OK| Requires modified pulse amplitude for more pronounced spike latency at smaller dt | |
| 46 | 11 | Padraig Gleeson | |Subthresh. osc.| J |OK| OK| | |
| 47 | 11 | Padraig Gleeson | |Resonator| K |not yet implemented| OK || |
| 48 | 12 | Padraig Gleeson | |Integrator| L |not yet implemented| OK (although new ComponentType [generalizedIzhikevichCell](https://github.com/OpenSourceBrain/IzhikevichModel/blob/master/NeuroML2/GeneralizedIzhikevichCell.xml) required)| Different model parameterization| |
| 49 | 11 | Padraig Gleeson | |Rebound spike| M |OK| OK || |
| 50 | 11 | Padraig Gleeson | |Rebound burst| N |OK| OK || |
| 51 | 11 | Padraig Gleeson | |Threshold variability| O |not yet implemented| OK || |
| 52 | 12 | Padraig Gleeson | |Bistability| P |OK| OK | Requires a slightly altered time of 2nd spike to ensure bistability at smaller dt | |
| 53 | 12 | Padraig Gleeson | |Depolarizing after-potential| Q |PROBLEM| PROBLEM| Response depending on the time step| |
| 54 | 12 | Padraig Gleeson | |Accomodation| R |not yet implemented| PROBLEM| Different from fig1| |
| 55 | 12 | Padraig Gleeson | |Inhibition-induced spiking| S |PROBLEM| PROBLEM| Response depending on the time step| |
| 56 | 12 | Padraig Gleeson | |Inhibition-induced bursting| T |PROBLEM | PROBLEM| Response diverging on PyNN and depending on the time step on NeuroML| |