NEURON PROGRAM FOR SIMULATING PYRAMIDAL NEURON CONDUCTANCES STATE AND STDP
Delgado JY, Gómez González JF, Desai NS. Pyramidal neuron conductance
state gates spike-timing-dependent plasticity. J Neurosci. 2010 Nov
24;30 (47):15713-25. doi: 10.1523/JNEUROSCI.3068-10.2010
"..\morphology\" : contains the morphology of the model cell
"..\mechanism\" : contains mechanisms of the model cell
"..\experiment\" : contains experiments and data of simulations
0- Auto-launch from ModelDB and skip to step 3 or:
1- Copy all the folders into your computer.
2- To Compile the mechanisms, you have to execute "clean-compile.bat"
file in folder "..\mechanism\mechanism_cell1\" (for mswin). For
linux/unix compile the mod files with nrnivmodl.
a) Execute "run.hoc" from "..\experiment\" folder.
b) Fit the morphology variable (diameter and length of dendrites
and soma, position and morphology of the spine) and parameters of
the mechanisms, etc, if it was necessary.
c) There are two options to run:
i) One run: Press the "Run" key, in this case, it executes
one simulation. If you wanted to save the data, you have to
select a "Number of Folder", for example "1", and if you
press the key "Save", the data will save in
ii) Multi-runs: Press the "Auto Runs" key, in this case, it
executes multiple simulations. The number of runs is given
in "..\experiment\Protocols.hoc" file, in addition, it is
able to define the protocols that you want to apply for
every run. By default, Delgado et al, 2010 defined the
position from the spine to the soma for every run. The data
will save automatically into folders named "data_XX", XX is
the distance from the spine to the soma.
José Francisco Gómez González, email@example.com