Neurons

A neuron in SpikingNN is compromised of a soma (cell body) and vector of synapses (dendrites), much like a biological neuron. The soma itself is broken into the cell and threshold function. Beyond making SpikingNN flexible and extensible, this breakdown of a neuron into parts allows for efficient evaluation.

A Neuron can be simulated with simulate!.

SpikingNN.simulate! — Method

simulate!(neuron::Neuron, T::Integer; dt::Real = 1.0, cb = () -> (), dense = false)

Fields:

neuron::Neuron: the neuron to simulate
T::Integer: number of time steps to simulate
dt::Real: the length of simulation time step
cb::Function: a callback function that is called at the start of each time step
dense::Bool: set to true to evaluate every time step even in the absence of events

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Soma

A Soma is made up of a cell body (found in Neuron Models) and theshold function (found in Threshold Models).

SpikingNN.Soma — Type

Soma{BT<:AbstractCell, TT<:AbstractThreshold}

A Soma is a cell body + a threshold.

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SpikingNN.excite! — Method

excite!(soma, current)

Inject current into soma.body.

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SpikingNN.evaluate! — Method

evaluate!(soma::Soma, t::Integer; dt::Real = 1.0)
(::Soma)(t::Integer; dt::Real = 1.0)
evaluate!(somas::AbstractArray{<:Soma}, t::Integer; dt::Real = 1.0)

Evaluate the soma's cell body, decide whether to spike according to the threshold, then register the spike event with the cell body. Return the spike event (0 for no spike or t for a spike).

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SpikingNN.reset! — Method

reset!(soma::T) where T<:Union{Soma, AbstractArray{<:Soma}}

Reset soma.body.

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Neuron

Neurons are the smallest simulated block in SpikingNN.

SpikingNN.Neuron — Type

Neuron{ST<:AbstractArray{<:AbstractSynapse}, CT<:Soma}

A Neuron is a vector of synapses feeding into a soma.

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SpikingNN.connect! — Method

connect!(neuron::Neuron, synapse::AbstractSynapse)

Connect synapse into neuron.

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SpikingNN.getvoltage — Method

getvoltage(neuron::Neuron)

Get the current membrane potential of neuron.soma.

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SpikingNN.excite! — Method

excite!(neuron::Neuron, spike::Integer)
excite!(neuron::Neuron, spikes::Array{<:Integer})
excite!(neuron::Neuron, input, T::Integer; dt::Real = 1.0)

Excite a neuron's synapses with spikes. Or excite a neuron's synapses with an arbitrary input function evaluated from 1:T. input must satisfy the following signature: input(t; dt).

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SpikingNN.evaluate! — Method

evaluate!(neuron::Neuron, t::Integer; dt::Real = 1.0)
(::Neuron)(t::Integer; dt::Real = 1.0)

Evaluate a neuron at time t by evaluating all its synapses, exciting the soma with current, then registering post-synaptic spikes with the synapses. Return the spike event (0 for no spike or t for spike).

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SpikingNN.reset! — Method

reset!(neuron::T) where T<:Union{Neuron, AbstractArray{<:Neuron}}

Reset neuron.synapses and neuron.soma.

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