ik.yaml

%YAML 1.2
---

# Operator templates (operators are used to define sets of coupled differential equations in PyRates)
#####################################################################################################

# operator for a single Izhikevich neuron
ik_op:
  base: OperatorTemplate
  equations:
    - "v' = (k*(v-v_r)*(v-v_theta) - u + eta + I_ext + g*s_in*(E_r - v)) / C"
    - "u' = (b*(v-v_r) - u) / tau_u + kappa*spike"
    - "s' = -s/tau_s + spike"
  variables:
    s: output(0.0)
    v: variable(-60.0)
    u: variable(0.0)
    C: 100.0
    k: 0.7
    v_r: -60.0
    v_theta: -40.0
    eta: 0.0
    g: 1.0
    E_r: 0.0
    b: -2.0
    tau_u: 33.33
    kappa: 10.0
    tau_s: 6.0
    spike: input(0.0)
    s_in: input(0.0)
    I_ext: input(0.0)

# mean-field operator for a population of coupled Izhikevich neurons
ik_mf_op:
  base: OperatorTemplate
  equations:
    - "r' = (Delta*k^2*(v-v_r)/(pi*C) + r*(k*(2.0*v-v_r-v_t) - g*s_in)) / C"
    - "v' = (k*v*(v-v_r-v_t) - C*pi*r*(Delta+pi*C*r/k) + k*v_r*v_t + g*s_in*(E_r-v) + eta + I_ext - u) / C"
    - "u' = (b*(v-v_r) - u)/tau_u + kappa*r"
    - "s' = -s/tau_s + r"
  variables:
    r: output(0.0)
    v: variable(-60.0)
    u: variable(0.0)
    s: variable(0.0)
    Delta: 0.1
    C: 100.0
    k: 0.7
    v_r: -60.0
    v_t: -40.0
    g: 20.0
    E_r: 0.0
    b: -2.0
    tau_u: 33.33
    kappa: 10.0
    tau_s: 6.0
    eta: 0.0
    I_ext: input(0.0)
    s_in: input(0.0)

# node templates (nodes are used to group operators together to form a dynamic network node in PyRates)
#######################################################################################################

# a single IK neuron
ik_neuron:
  base: NodeTemplate
  operators:
    - ik_op

# an IK mean-field population
ik_mf_pop:
  base: NodeTemplate
  operators:
    - ik_mf_op

# circuit templates (circuits are collections of nodes, connected by edges)
###########################################################################

ik_mf:
  base: CircuitTemplate
  nodes:
    p: ik_mf_pop
  edges:
    - [p/ik_mf_op/s, p/ik_mf_op/s_in, null, {weight: 1.0}]