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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`CompartmentalModeling`
Transition
​
Transition
[
c
1
,r,
c
2
]
represents a transition from compartment
c
1
to compartment
c
2
with a transfer rate constant
r
.
​
​
Transition
[
nr
1
r
1
+
nr
2
r
2
+…,rate,
np
1
p
1
+
np
2
p
2
+…]
represents a chemical reaction of reactants
r
i
to products
p
i
with the mass action
rate
; the stoichiometric coefficients
nr
i
and
np
i
are expected to be positive integers.
​
Details and Options

Examples  
(5)
Basic Examples  
(1)
Specify a
Transition
in
FullForm
:
In[1]:=
Transition
[A,k,B]
Out[1]=
A
k
→
B
Specify a
Transition
in
StandardForm
using
RightArrow
with an
Overscript
:
In[2]:=
A
k
→
B
Out[2]=
A
k
→
B
Specify a chemical reaction:
In[3]:=
A+2B
k
→
2X+Y
Out[3]=
A+2B
k
→
2X+Y
Generalizations & Extensions  
(1)

Options  
(3)

SeeAlso
NullCompartment
 
▪
KineticCompartmentalModel
RelatedGuides
▪
Compartmental Modeling
""

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