examples-plasticity_STDP1.txt

.. currentmodule:: brian

.. index::
   pair: example usage; subplot
   pair: example usage; plot
   pair: example usage; run
   pair: example usage; PopulationRateMonitor
   pair: example usage; show
   pair: example usage; Connection
   pair: example usage; hist
   pair: example usage; PoissonGroup
   pair: example usage; NeuronGroup
   pair: example usage; rate
   pair: example usage; STDP

.. _example-plasticity_STDP1:

Example: STDP1 (plasticity)
===========================

Spike-timing dependent plasticity
Adapted from Song, Miller and Abbott (2000) and Song and Abbott (2001)

This simulation takes a long time!

::

    from brian import *
    from time import time
    
    N = 1000
    taum = 10 * ms
    tau_pre = 20 * ms
    tau_post = tau_pre
    Ee = 0 * mV
    vt = -54 * mV
    vr = -60 * mV
    El = -74 * mV
    taue = 5 * ms
    F = 15 * Hz
    gmax = .01
    dA_pre = .01
    dA_post = -dA_pre * tau_pre / tau_post * 1.05
    
    eqs_neurons = '''
    dv/dt=(ge*(Ee-vr)+El-v)/taum : volt   # the synaptic current is linearized
    dge/dt=-ge/taue : 1
    '''
    
    input = PoissonGroup(N, rates=F)
    neurons = NeuronGroup(1, model=eqs_neurons, threshold=vt, reset=vr)
    synapses = Connection(input, neurons, 'ge', weight=rand(len(input), len(neurons)) * gmax)
    neurons.v = vr
    
    #stdp=ExponentialSTDP(synapses,tau_pre,tau_post,dA_pre,dA_post,wmax=gmax)
    ## Explicit STDP rule
    eqs_stdp = '''
    dA_pre/dt=-A_pre/tau_pre : 1
    dA_post/dt=-A_post/tau_post : 1
    '''
    dA_post *= gmax
    dA_pre *= gmax
    stdp = STDP(synapses, eqs=eqs_stdp, pre='A_pre+=dA_pre;w+=A_post',
              post='A_post+=dA_post;w+=A_pre', wmax=gmax)
    
    rate = PopulationRateMonitor(neurons)
    
    start_time = time()
    run(100 * second, report='text')
    print "Simulation time:", time() - start_time
    
    subplot(311)
    plot(rate.times / second, rate.smooth_rate(100 * ms))
    subplot(312)
    plot(synapses.W.todense() / gmax, '.')
    subplot(313)
    hist(synapses.W.todense() / gmax, 20)
    show()