NeuronVisio

Installation

To install NeuronVisio you need to satisfy the following dependencies

• pygtk: http://www.pygtk.org/
• visual: http://vpython.org/
• matplotlib: http://matplotlib.sourceforge.net/

and of course NEURON

easy_install neuronvisio

python setup.py install

Documentation

The documentation is available in the doc folder or online or in pdf format in the docs direcotry

Quickstart

This code is just to give an idea in how to use nrnvisio module:

1. fire up an ipython console with pylab switch.:

   ipython -pylab      # If you don't use the switch you will not see any graph.
   

2. Import the module:

   from neuronvisio.controls import Controls
   controls = Controls()
   

When nrnvisio is started the thread is launched. In this thread all the process of nrnvisio will happen without blocking the console.

As a quick example the following code:

1. Creates a single section called soma
2. Insert an Hodgkey-Huxley channel and a passive conductance
3. Insert an alphaSynapse to provide a stimul.

A quick example can be the following::

from nrnvisio.controls import Controls
controls = Controls() # Starting the GUI

from neuron import h    # Getting the HocInterpreter

soma = h.Section()      # Creating a section
soma.insert('hh')       # Inserting a HH channel
soma.insert('pas')      # inserting a passive conductance
syn = h.AlphaSynapse(0.5, sec=soma)     # synaptic input
syn.onset = 0.5         # when to fire
syn.gmax = 0.05         # the conductance of the synapse
syn.e = 0               # the reversal potential

More example in the example directory show how to use Neuronvisio with more complex model.

Contacts

Homepage: http://mattions.github.com/neuronvisio/ Mailing List: http://groups.google.com/group/neuronvisio

Help and development

If you'd like to help out, you can fork the project at http://github.com/mattions/neuronvisio and report any bugs at http://github.com/mattions/neuronvisio/issues.