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Proposed hh model example changes #867

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Jun 4, 2024
Merged

Proposed hh model example changes #867

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TorkelE May 22, 2024
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TorkelE May 29, 2024
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2 changes: 1 addition & 1 deletion docs/pages.jl
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Original file line number Diff line number Diff line change
Expand Up @@ -20,7 +20,7 @@ pages = Any[
"Model creation examples" => Any[
"model_creation/examples/basic_CRN_library.md",
"model_creation/examples/programmatic_generative_linear_pathway.md",
#"model_creation/examples/hodgkin_huxley_equation.md",
"model_creation/examples/hodgkin_huxley_equation.md",
#"model_creation/examples/smoluchowski_coagulation_equation.md"
]
],
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4 changes: 3 additions & 1 deletion docs/src/model_creation/examples/hodgkin_huxley_equation.md
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Expand Up @@ -13,7 +13,7 @@ cells such as neurons and muscle cells.
We begin by importing some necessary packages.
```@example hh1
using ModelingToolkit, Catalyst, NonlinearSolve
using DifferentialEquations, Symbolics
using OrdinaryDiffEq, Symbolics
using Plots
t = default_t()
D = default_time_deriv()
Expand Down Expand Up @@ -77,6 +77,7 @@ I = I₀ * sin(2*pi*t/30)^2
# get the gating variables to use in the equation for dV/dt
@unpack m,n,h = hhrn

Dₜ = default_time_deriv()
eqs = [Dₜ(V) ~ -1/C * (ḡK*n^4*(V-EK) + ḡNa*m^3*h*(V-ENa) + ḡL*(V-EL)) + I/C]
@named voltageode = ODESystem(eqs, t)
nothing # hide
Expand All @@ -88,6 +89,7 @@ Finally, we add this ODE into the reaction model as

```@example hh1
@named hhmodel = extend(voltageode, hhrn)
hhmodel = complete(hhmodel)
nothing # hide
```

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