Commit dbaccafa authored by Bentriou Mahmoud's avatar Bentriou Mahmoud
Browse files

changes in repressilator: transition name + degradation reactions; change in plots

parent f589101f
...@@ -126,8 +126,6 @@ function plot_periodic_trajectory(A::LHA, σ::SynchronizedTrajectory, sym_obs::S ...@@ -126,8 +126,6 @@ function plot_periodic_trajectory(A::LHA, σ::SynchronizedTrajectory, sym_obs::S
scatter!(p, times(σ)[idx_n], σ[sym_obs][idx_n], annotations = annots, scatter!(p, times(σ)[idx_n], σ[sym_obs][idx_n], annotations = annots,
markershape = :utriangle, markersize = 3, label = "n") markershape = :utriangle, markersize = 3, label = "n")
hline!(p, [A.constants[:L], A.constants[:H]], label = "L, H", color = :grey; linestyle = :dot) hline!(p, [A.constants[:L], A.constants[:H]], label = "L, H", color = :grey; linestyle = :dot)
@show values_n
@show values_tp
if filename == "" if filename == ""
display(p) display(p)
else else
......
...@@ -6,12 +6,12 @@ repressilator = @network_model begin ...@@ -6,12 +6,12 @@ repressilator = @network_model begin
trl1: (mRNA1 => mRNA1 + P1, β * mRNA1) trl1: (mRNA1 => mRNA1 + P1, β * mRNA1)
trl2: (mRNA2 => mRNA2 + P2, β * mRNA2) trl2: (mRNA2 => mRNA2 + P2, β * mRNA2)
trl3: (mRNA3 => mRNA3 + P3, β * mRNA3) trl3: (mRNA3 => mRNA3 + P3, β * mRNA3)
d1: (mRNA1 => 0, mRNA1) degr1: (mRNA1 => 0, mRNA1)
d2: (mRNA2 => 0, mRNA2) degr2: (mRNA2 => 0, mRNA2)
d3: (mRNA3 => 0, mRNA3) degr3: (mRNA3 => 0, mRNA3)
d4: (P1 => 0, P1) degr4: (P1 => 0, P1)
d5: (P2 => 0, P2) degr5: (P2 => 0, P2)
d6: (P3 => 0, P3) degr6: (P3 => 0, P3)
end "Repressilator pkg" end "Repressilator pkg"
set_observed_var!(repressilator, [:mRNA1, :mRNA2, :mRNA3, :P1, :P2, :P3]) set_observed_var!(repressilator, [:mRNA1, :mRNA2, :mRNA3, :P1, :P2, :P3])
......
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