cell

package
v0.0.0-...-073bf36 Latest Latest
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 Go to latest Published: Mar 22, 2019 License: MIT Imports: 6 Imported by: 0

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Index

Constants

View Source 
const (
	InitialPreT = 0.0 //-10000000000.0
)

This synapse is for prototyping only.

View Source 
const (
	RefractoryEpsilon = 0.1
)

Variables

This section is empty.

Functions

func GetNextId 

func GetNextId() int

Types

type Data 

type Data struct {
	// The time mark at which the data began flowing.
	Time float64

	// Value can be 1 or 0
	Value byte

	// Source indicates where the spike came from.
	Source SourceType
}

Data represents information flowing through the network.

func NewData 

func NewData() *Data

type DataPool 

type DataPool struct {
	// contains filtered or unexported fields
}
var PoolData *DataPool = NewDataPool()

func NewDataPool 

func NewDataPool() *DataPool

func (*DataPool) Drop 

func (dp *DataPool) Drop()

func (*DataPool) Get 

func (dp *DataPool) Get() *Data

func (*DataPool) Put 

func (dp *DataPool) Put(d *Data)

type ICell 

type ICell interface {
	ID() int
	SetID(int)

	SetThreshold(float64)

	// Output is either a 1 or 0
	Output() float64

	// Input comes from a IConnection
	AddInConnection(IConnection)

	AddOutConnection(IConnection)

	AttachDendrite(IDendrite)

	Integrate(dt float64) float64

	Process()

	Reset()

	SetField(field string, value string)

	// Called at the end of a simulation run (not a pass)
	PostProcess()

	Diagnostics(string)

	Load(json interface{})
	Store(file string)

	// Properties
	APFast() float64
	APSlow() float64
	APSlowPrior() float64
	Efficacy() float64
	ToJSON() interface{}
}

ICell represents a network wide cell of which there can be many implementations. Cells make connections with other cells via [IConnection]s

func NewProtoNeuron 

func NewProtoNeuron() ICell

type ICompartment 

type ICompartment interface {
	// Compartment properties
	AddSynapse(ISynapse)

	// Evaluates the total effective weight for the compartment.
	Integrate(t float64, cell ICell) float64

	Process()

	PostProcess()

	Dendrite() IDendrite

	Reset()

	Load(json interface{})

	ToJSON() interface{}
}

ICompartment collects synapses. It represents the functionality of a group of synapses located along the Dendrite. Compartments are either close to or farther away from the neuron's soma: Proximal, Apical, Distal. TODO compartments can overlap causing effects to diffuse into neighboring compartments, for example, Ca++ dynamics (CaDP).

func NewProtoCompartment 

func NewProtoCompartment(den IDendrite) ICompartment

type IConnection 

type IConnection interface {
	// If a connection has a delay then this will
	// step the delay
	Update()

	// Inject a Data (aka spike) into the connection.
	Input(int)

	// Get connection's output
	Output() int

	// Post pass after Process and Integrate
	Post()
}

IConnection represents a connection between inputs and/or cells. Connections transport Data objects.

A connection has a collection of inputs streams and output targets. A connection merges streams that target multiple cells.

Multiple cells can connect their output to the connection's input and the connection's ouput can feed into multiple cell inputs.

Some connections can delay their output behind their input. Some connections and have no delay (aka strait).

func NewStraightConnection 

func NewStraightConnection() IConnection

type IDendrite 

type IDendrite interface {
	AddCompartment(ICompartment)

	Integrate(t float64, cell ICell) float64

	Process()

	PostProcess()

	APEfficacy(distance float64) float64

	SetField(field string, value string)

	Reset()

	Load(json interface{})

	ToJSON() interface{}
}

IDendrite collects and manages ICompartments.

func NewProtoDendrite 

func NewProtoDendrite(cell ICell) IDendrite

type ISynapse 

type ISynapse interface {
	Id() int

	Connect(IConnection)
	GetConnection() IConnection

	// Evaluates the total effective weight for the synapse.
	Integrate(t float64, cell ICell) float64

	// Called before Integrate()
	Process()

	// Called at the end of a simulation run (not a pass)
	PostProcess()

	Reset()

	// The current input on the synapse. The input is feed from an IConnection's
	// output.
	Input() int

	IsExcititory() bool

	Load(json interface{})
	ToJSON() interface{}

	SetWeight(float64)
	SetWMax(float64)
	SetWMin(float64)

	SetField(field string, value string)
	SetTaoP(float64)
	SetTaoN(float64)
	SetAma(float64)
	SetAmb(float64)
	SetTsw(float64)
}

ISynapse is a common interface. A synapse is associated with a connection and one or more behaviors. One such behavior is STDP for evaluating the Long-term effect. Each synapse is part of a group called a Compartment.

func NewProtoSynapse 

func NewProtoSynapse(comp ICompartment, synType SynapseType, id int, weightSeed int64) ISynapse

type ProtoCompartment 

type ProtoCompartment struct {
	// contains filtered or unexported fields
}

func (*ProtoCompartment) AddSynapse 

func (bc *ProtoCompartment) AddSynapse(syn ISynapse)

func (*ProtoCompartment) Dendrite 

func (c *ProtoCompartment) Dendrite() IDendrite

func (*ProtoCompartment) Integrate 

func (c *ProtoCompartment) Integrate(t float64, cell ICell) float64

func (*ProtoCompartment) Load 

func (c *ProtoCompartment) Load(json interface{})

func (*ProtoCompartment) PostProcess 

func (c *ProtoCompartment) PostProcess()

func (*ProtoCompartment) Process 

func (c *ProtoCompartment) Process()

func (*ProtoCompartment) Reset 

func (bc *ProtoCompartment) Reset()

func (*ProtoCompartment) ToJSON 

func (c *ProtoCompartment) ToJSON() interface{}

type ProtoDendrite 

type ProtoDendrite struct {
	// contains filtered or unexported fields
}

func (*ProtoDendrite) APEfficacy 

func (d *ProtoDendrite) APEfficacy(distance float64) float64

func (*ProtoDendrite) AddCompartment 

func (bc *ProtoDendrite) AddCompartment(comp ICompartment)

func (*ProtoDendrite) Integrate 

func (d *ProtoDendrite) Integrate(t float64, cell ICell) float64

2nd pass Integrate is the 2nd pass performing integration.

func (*ProtoDendrite) Load 

func (d *ProtoDendrite) Load(json interface{})

func (*ProtoDendrite) PostProcess 

func (d *ProtoDendrite) PostProcess()

func (*ProtoDendrite) Process 

func (d *ProtoDendrite) Process()

Process handles post processing before Integration is performed.

func (*ProtoDendrite) Reset 

func (bc *ProtoDendrite) Reset()

func (*ProtoDendrite) SetField 

func (d *ProtoDendrite) SetField(field, value string)

func (*ProtoDendrite) ToJSON 

func (d *ProtoDendrite) ToJSON() interface{}

type ProtoNeuron 

type ProtoNeuron struct {

	// The time-mark of the current AP.
	APt float64

	APMax float64
	// contains filtered or unexported fields
}

func (*ProtoNeuron) APFast 

func (n *ProtoNeuron) APFast() float64

func (*ProtoNeuron) APSlow 

func (n *ProtoNeuron) APSlow() float64

func (*ProtoNeuron) APSlowPrior 

func (n *ProtoNeuron) APSlowPrior() float64

func (*ProtoNeuron) AddInConnection 

func (n *ProtoNeuron) AddInConnection(con IConnection)

func (*ProtoNeuron) AddOutConnection 

func (n *ProtoNeuron) AddOutConnection(con IConnection)

func (*ProtoNeuron) AttachDendrite 

func (bc *ProtoNeuron) AttachDendrite(den IDendrite)

func (*ProtoNeuron) Diagnostics 

func (bc *ProtoNeuron) Diagnostics(msg string)

func (*ProtoNeuron) Efficacy 

func (n *ProtoNeuron) Efficacy() float64

func (*ProtoNeuron) ID 

func (bc *ProtoNeuron) ID() int

func (*ProtoNeuron) Integrate 

func (n *ProtoNeuron) Integrate(t float64) float64

func (*ProtoNeuron) Load 

func (n *ProtoNeuron) Load(json interface{})

func (*ProtoNeuron) Output 

func (n *ProtoNeuron) Output() float64

func (*ProtoNeuron) PostProcess 

func (n *ProtoNeuron) PostProcess()

func (*ProtoNeuron) Process 

func (n *ProtoNeuron) Process()

func (*ProtoNeuron) Reset 

func (n *ProtoNeuron) Reset()

func (*ProtoNeuron) SetField 

func (n *ProtoNeuron) SetField(field, value string)

func (*ProtoNeuron) SetID 

func (bc *ProtoNeuron) SetID(id int)

func (*ProtoNeuron) SetThreshold 

func (n *ProtoNeuron) SetThreshold(theta float64)

func (*ProtoNeuron) Store 

func (bc *ProtoNeuron) Store(file string)

func (*ProtoNeuron) ToJSON 

func (n *ProtoNeuron) ToJSON() interface{}

type ProtoSynapse 

type ProtoSynapse struct {
	// contains filtered or unexported fields
}

func (*ProtoSynapse) Connect 

func (bs *ProtoSynapse) Connect(con IConnection)

func (*ProtoSynapse) GetConnection 

func (bs *ProtoSynapse) GetConnection() IConnection

func (*ProtoSynapse) Id 

func (bs *ProtoSynapse) Id() int

func (*ProtoSynapse) Input 

func (bs *ProtoSynapse) Input() int

Input returns the input feeding into this synapse. The synapse has an IConnection for input. This method returns that connection's output. i.e. the data entering the synapse from the connection.

func (*ProtoSynapse) Integrate 

func (n *ProtoSynapse) Integrate(t float64, cell ICell) float64

Integrate is the 2nd pass and handles integration. The effects pre/post synaptic spikes are felt here.

func (*ProtoSynapse) IsExcititory 

func (bs *ProtoSynapse) IsExcititory() bool

func (*ProtoSynapse) Load 

func (n *ProtoSynapse) Load(json interface{})

func (*ProtoSynapse) PostProcess 

func (n *ProtoSynapse) PostProcess()

Called at the end of a simulation run (not a pass)

func (*ProtoSynapse) Process 

func (n *ProtoSynapse) Process()

It is considered the 1st pass of the simulation per time step. 1) Internal values are 'moved' to the outputs. 2) Learning rules are applied.

func (*ProtoSynapse) Reset 

func (n *ProtoSynapse) Reset()

func (*ProtoSynapse) SetAma 

func (n *ProtoSynapse) SetAma(v float64)

func (*ProtoSynapse) SetAmb 

func (n *ProtoSynapse) SetAmb(v float64)

func (*ProtoSynapse) SetField 

func (n *ProtoSynapse) SetField(field, value string)

func (*ProtoSynapse) SetId 

func (bs *ProtoSynapse) SetId(id int)

func (*ProtoSynapse) SetTaoN 

func (n *ProtoSynapse) SetTaoN(v float64)

func (*ProtoSynapse) SetTaoP 

func (n *ProtoSynapse) SetTaoP(v float64)

func (*ProtoSynapse) SetTsw 

func (n *ProtoSynapse) SetTsw(v float64)

func (*ProtoSynapse) SetWMax 

func (bs *ProtoSynapse) SetWMax(v float64)

func (*ProtoSynapse) SetWMin 

func (bs *ProtoSynapse) SetWMin(v float64)

func (*ProtoSynapse) SetWeight 

func (bs *ProtoSynapse) SetWeight(weight float64)

func (*ProtoSynapse) ToJSON 

func (n *ProtoSynapse) ToJSON() interface{}

type ProximalSynapse 

type ProximalSynapse struct {
	// contains filtered or unexported fields
}

func (*ProximalSynapse) Connect 

func (bs *ProximalSynapse) Connect(con IConnection)

func (*ProximalSynapse) GetConnection 

func (bs *ProximalSynapse) GetConnection() IConnection

func (*ProximalSynapse) Id 

func (bs *ProximalSynapse) Id() int

func (*ProximalSynapse) Input 

func (bs *ProximalSynapse) Input() int

Input returns the input feeding into this synapse. The synapse has an IConnection for input. This method returns that connection's output. i.e. the data entering the synapse from the connection.

func (*ProximalSynapse) Integrate 

func (n *ProximalSynapse) Integrate(dt float64) float64

func (*ProximalSynapse) IsExcititory 

func (bs *ProximalSynapse) IsExcititory() bool

func (*ProximalSynapse) Process 

func (n *ProximalSynapse) Process()

func (*ProximalSynapse) SetId 

func (bs *ProximalSynapse) SetId(id int)

func (*ProximalSynapse) SetWMax 

func (bs *ProximalSynapse) SetWMax(v float64)

func (*ProximalSynapse) SetWMin 

func (bs *ProximalSynapse) SetWMin(v float64)

func (*ProximalSynapse) SetWeight 

func (bs *ProximalSynapse) SetWeight(weight float64)

type SourceType 

type SourceType int
const (
	StimulusSource SourceType = iota
	PoissonSource
	NeuronSource
	// Typically indicates multiple sources spiked at the same time.
	MultiSource
)

type StimulusNeuron 

type StimulusNeuron struct {
	// contains filtered or unexported fields
}

This type of neuron handles stimulus type inputs, however, it can also handle interior/hidden type neurons.

func (*StimulusNeuron) AttachDendrite 

func (bc *StimulusNeuron) AttachDendrite(den IDendrite)

func (*StimulusNeuron) Diagnostics 

func (bc *StimulusNeuron) Diagnostics(msg string)

func (*StimulusNeuron) ID 

func (bc *StimulusNeuron) ID() int

func (*StimulusNeuron) Load 

func (bc *StimulusNeuron) Load(file string)

func (*StimulusNeuron) SetID 

func (bc *StimulusNeuron) SetID(id int)

func (*StimulusNeuron) Store 

func (bc *StimulusNeuron) Store(file string)

type StraightConnection 

type StraightConnection struct {
	// contains filtered or unexported fields
}

StraightConnection has no delay. On each time mark data immediately appears on the output.

func (*StraightConnection) Input 

func (sc *StraightConnection) Input(b int)

Input ORs the data value to the connection

func (*StraightConnection) Output 

func (sc *StraightConnection) Output() int

func (*StraightConnection) Post 

func (sc *StraightConnection) Post()

func (*StraightConnection) Update 

func (bc *StraightConnection) Update()

type SynapseType 

type SynapseType bool
const (
	Excititory SynapseType = true
	Inhibitory             = false
)

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