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Spike timing detection in different forms of LTD (Doi et al 2005)
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<html><body> Note: <a href="http://www.cns.atr.jp/neuroinfo/doi/doiJNSdemo.tar.gz">Click here for the model tar.gz file</a> available from <a href="http://www.cns.atr.jp/neuroinfo/doi/indexE.html">http://www.cns.atr.jp/neuroinfo/doi/indexE.html</a> <hr/>Note from the ModelDB administrator: here are some notes from an original readme supplied by the authors: <hr> <p>Instruction for demo simulations that generate the simulation figures in<br> <br> Tomokazu Doi, Shinya Kuroda, Takayuki Michikawa, and Mitsuo Kawato<br> Inositol 1,4,5-Tripshosphate-Dependent Ca2+ Threshold Dynamics Detect Spike Timing in Cerebellar Purkinje Cells.<br> The Journal of Neuroscience 25(4): 950-961, 2005<br> <br> <br> The simulation requires GENESIS version 2.2 and kinetikit version 9 or higher. Both of which are included in the compressed file you have downloaded. We have confirmed that our simulation scripts run on Red Hat Linux version 8 and Pentium 4 PCs. <br> <br> <br> ////////////////////////////////////////////////////////////////<br> <br> HOW TO RUN DEMOS<br> <br> <br> To extract doiJNSdemo.tar.gz, type<br> <br> tar zxvf doiJNSdemo.tar.gz<br> <br> <br> The created directory has several files named fig*.g. To run demos, just type<br> <br> genesis fig3.g<br> (or choose other files named fig*.g)<br> <br> GENESIS/kinetikit includes model scripts for the simulation, and displays and saves simulation results in 'simresult/fig*/'. In simresult/fig*/, there are MALTAB scripts files (*.m) which display the simulation results as in the JNS paper. Comments in fig*.g might be useful to understand how GENESIS/kinetikit works.<br> <br> Some simulations take enormous time, more than months. Here is a list of expected time for simulation on a 2 GHz Pentium 4 PC.<br> <br> <br> </p> <table border="1"> <tbody> <tr> <td>fig3.g</td> <td align="right">4 min</td> </tr> <tr> <td>fig4.g</td> <td align="right">12 min</td> </tr> <tr> <td>fig5.g</td> <td align="right">20 min</td> </tr> <tr> <td>fig6A.g</td> <td align="right">3 min</td> </tr> <tr> <td>fig6B.g</td> <td align="right">7 hrs</td> </tr> <tr> <td>fig6C.g</td> <td align="right">3 min</td> </tr> <tr> <td>fig7A.g</td> <td align="right">12 min</td> </tr> <tr> <td>fig7B.g</td> <td align="right">9 hrs</td> </tr> <tr> <td>fig8CDE.g</td> <td align="right">80 min</td> </tr> <tr> <td>fig8F.g</td> <td align="right">10 days</td> </tr> <tr> <td>fig9.g</td> <td align="right">25 min</td> </tr> <tr> <td>fig11A.g</td> <td align="right">4 min</td> </tr> <tr> <td>figS2A.g</td> <td align="right">12 min</td> </tr> <tr> <td>figS2BCDE.g</td> <td align="right">1 day</td> </tr> <tr> <td>figS2F.g</td> <td align="right">27 hrs</td> </tr> <tr> <td>figS2G.g</td> <td align="right">4 hrs</td> </tr> <tr> <td>figS2HIJK.g</td> <td align="right">120 days</td> </tr> </tbody> </table> <p><br> <br>To load the model scripts without demos, type<br> genesis DoiCaModel.g<br> <br> All of the model parameters has notes in the scripts, which are identical to Supplemental Tables 1-3. <br> <br> ////////////////////////////////////////////////////////////////<br> <br> Tomoakazu Doi, <br> ATR Computational Neuroscience Labs,<br> 26 Jan 2005<br> <br> </p> </body></html>
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