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fig
jobscripts
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README.md
analyse.py
clean_up.sh
compress.py
master_script.py
simulate.py
visualise.py

README.md

Simulation and data analysis code for parametric spiking models of the cerebellar granule cell layer. Cell and synaptic models necessary to run the simulations are mantained separately at https://github.com/epiasini/BillingsEtAl2014_GCL_Models.

Requirements

  • Neuron >= 7.3
  • neuroConstruct >= 1.7.1
  • jNeuroML >= 5.0.1

Python packages:

  • numpy >= 1.7
  • h5py >= 2.2
  • networkX >= 1.9
  • decorator >= 3.4 (required for networkX)

Note that networkX needs to be available both to CPython and to the Jython interpreter embedded in neuroConstruct. A convenient way of ensuring this is by installing the module somewhere and by appropriately modifying the JYTHONPATH environment variable. Same thing holds for decorator.