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CompartmentalModeling

Guides

  • Compartmental Modeling

Tech Notes

  • Vertical Transmission Models

Symbols

  • DynamicTransmissionModel
  • ForceOfInfection
  • Incidence
  • NextGenerationMatrix
  • CollectModel
  • CompartmentalModelGraph
  • CompetitiveInhibitorKinetics
  • DefinePropensityFunction
  • DeriveTransitions
  • DynamicTransmissionModel
  • EnzymeReaction
  • EpidemiologyModelData
  • EpidemiologyModel
  • ExpandModel
  • ForceOfInfection
  • HillKinetics
  • Incidence
  • KineticCompartmentalModel
  • KineticReactionNetworkModel
  • MichaelisMentenKinetics
  • NextGenerationMatrix
  • NoncompetitiveInhibitorKinetics
  • NullCompartment
  • ResolveCompartmentalModel
  • StochasticSolve
  • StoichiometryTable
  • StratifyModel
  • Transition
  • UncompetitiveInhibitorKinetics
  • VitalDemographicsModel
  • $C
  • $CompartmentalModelingVersion
  • $EpidemiologyColor
  • $EpidemiologyModelingVersion
  • $R
  • $SystemsBiologyModelingVersion
RobertNachbar`SystemsBiologyModeling`
KineticReactionNetworkModel
​
KineticReactionNetworkModel
[{
r
1
,
r
2
,…},t]
returns an association of model data for the input reactions
r
i
and time symbol
t
.
​
Details and Options

Examples  
(6)
Basic Examples  
(1)
A simple unimolecular reaction
In[1]:=
KineticReactionNetworkModel

k
→
ℬ,t
Out[1]=
Variables{,ℬ},ComponentReactions
k
→
ℬ,StoichiometricMatrix{{-1,1}},Rates{k[t]},Equations{
′

[t]-k[t],
′
ℬ
[t]k[t]},TimeSymbolt
A bimolecular reaction:
In[2]:=
KineticReactionNetworkModel
+ℬ
k
→
+,t
Out[2]=
Variables{,ℬ,,},ComponentReactions+ℬ
k
→
+,StoichiometricMatrix{{-1,-1,1,1}},Rates{k[t]ℬ[t]},Equations{
′

[t]-k[t]ℬ[t],
′
ℬ
[t]-k[t]ℬ[t],
′

[t]k[t]ℬ[t],
′

[t]k[t]ℬ[t]},TimeSymbolt
A dimerization reaction:
In[3]:=
KineticReactionNetworkModel
2
k
→
ℬ,t
Out[3]=
Variables{,ℬ},ComponentReactions2
k
→
ℬ,StoichiometricMatrix{{-2,1}},Rates{k
2
[t]
},Equations{
′

[t]-2k
2
[t]
,
′
ℬ
[t]k
2
[t]
},TimeSymbolt
Applications  
(2)

Neat Examples  
(3)

SeeAlso
KineticCompartmentalModel
RelatedGuides
▪
Compartmental Modeling
""

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