PVcell

Description

A model of mouse primary motor cortex (M1) parvalbumin-positive (PV) corticospinal cell

Developed using NetPyNE (https://www.netpyne.org/)

Setup and execution

Requires NEURON with Python and MPI support.

1. Type or ./compile (make sure it is an executable) or the equivalent nrnivmodl mod. This should create a directory called either i686 or x86_64, depending on your computer's architecture.
2. To run single simulation type: ./runsim [num_proc] (make sure it is an executable) or the equivalent mpiexec -np [num_proc] nrniv -python -mpi sim/init.py
3. To run batch script type: python sim/batch.py
4. To run analysis type: python analysis\fIcurve_calculateAndPlot.py

Use the flag -u after python if you want real-time printing on console

Overview of file structure:

• sim/init.py: Main executable; calls functions from other modules. Sets what parameter file to use.

• sim/netParams.py: Network parameters

• sim/cfg.py: Simulation configuration

• sim/batch.py: Batch file

For further information please contact: [email protected]