Class SIRModel

java.lang.Object

org.episteme.natural.medicine.epidemiology.SIRModel

All Implemented Interfaces:

UniversalDataModel

public class SIRModel
extends Object
implements UniversalDataModel

SIR (Susceptible-Infected-Recovered) epidemic model. *

Reference:
Zeigler, B. P., Praehofer, H., invalid input: '&' Kim, T. G. (2000). Theory of Modeling and Simulation. Academic Press.

Since:

1.0

Author:

Silvere Martin-Michiellot, Gemini AI (Google DeepMind)

Constructor Summary

Constructors

Constructor	Description
SIRModel(int population, int initialInfected, Quantity<Frequency> transmissionRate, Quantity<Frequency> recoveryRate)

Method Summary

Modifier and Type	Method	Description
static SIRModel	covid19Like(int population, int initialCases)
Quantity<Frequency>	getBeta()
Real	getFinalSize()	Final epidemic size (fraction infected)
Quantity<Frequency>	getGamma()
Real	getHerdImmunityThreshold()	Herd immunity threshold (1 - 1/Râ‚€)
Real	getInfected()
String	getModelType()	Returns a unique identifier for the type of data model.
Quantity<Time>	getPeakTime()	Peak time estimation
int	getPopulation()
Map<String, Quantity<?>>	getQuantities()	Returns the primary physical values associated with this model.
Real	getR0()	Basic reproduction number R₀ = β/γ
Real	getRecovered()
Real	getSusceptible()
Quantity<Time>	getTime()
static SIRModel	influenzaLike(int population, int initialCases)
static SIRModel	measlesLike(int population, int initialCases)
void	reset()
Real[][]	simulate(Quantity<Time> duration, Quantity<Time> dt)	Run simulation for duration
void	step(Quantity<Time> dt)	Advance simulation by dt using Euler method
String	toString()

Methods inherited from class Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Methods inherited from interface UniversalDataModel

getMetadata, validate

Constructor Details

SIRModel

public SIRModel(int population,
 int initialInfected,
 Quantity<Frequency> transmissionRate,
 Quantity<Frequency> recoveryRate)

Method Details

getR0

public Real getR0()

Basic reproduction number R₀ = β/γ

getHerdImmunityThreshold

public Real getHerdImmunityThreshold()

Herd immunity threshold (1 - 1/Râ‚€)

step

public void step(Quantity<Time> dt)

Advance simulation by dt using Euler method

simulate

public Real[][] simulate(Quantity<Time> duration,
 Quantity<Time> dt)

Run simulation for duration

reset

public void reset()

getPeakTime

public Quantity<Time> getPeakTime()

Peak time estimation

getFinalSize

public Real getFinalSize()

Final epidemic size (fraction infected)

getSusceptible

public Real getSusceptible()

getInfected

public Real getInfected()

getRecovered

public Real getRecovered()

getTime

public Quantity<Time> getTime()

getPopulation

public int getPopulation()

getBeta

public Quantity<Frequency> getBeta()

getGamma

public Quantity<Frequency> getGamma()

toString

public String toString()

Overrides:

toString in class Object

covid19Like

public static SIRModel covid19Like(int population,
 int initialCases)

influenzaLike

public static SIRModel influenzaLike(int population,
 int initialCases)

measlesLike

public static SIRModel measlesLike(int population,
 int initialCases)

getModelType

public String getModelType()

Description copied from interface: UniversalDataModel

Returns a unique identifier for the type of data model. Examples: "SPATIAL_GEOMETRY", "ECONOMIC_PORTFOLIO", "ARCHITECTURAL_PLAN".

Specified by:

getModelType in interface UniversalDataModel

getQuantities

public Map<String, Quantity<?>> getQuantities()

Description copied from interface: UniversalDataModel

Returns the primary physical values associated with this model. This allows generic tools to extract and convert measurements.

Specified by:

getQuantities in interface UniversalDataModel