Small biophysical neural circuit models
- Numpy
The standard python module for matrix and vector computations: https://pypi.python.org/pypi/numpy.
- Scipy
The standard python module for statistical analysis: http://www.scipy.org/install.html.
- Matplotlib
The standard python module for data visualization: http://matplotlib.org/users/installing.html.
- NEURON
A simulator for biophysical models of neurons and networks of neurons: https://github.com/neuronsimulator/nrn
Once NEURON is installed, set the PATH and PYTHONPATH environment variables as follows:
export PYTHONPATH=$HOME/install/lib/python:$PYTHONPATH
export PATH=$HOME/install/bin:$PATH
As in a typical NEURON workflow, use nrnivmodl to translate MOD files:
nrnivmodl mechanisms