Class Epidemiology

java.lang.Object

org.episteme.natural.biology.ecology.Epidemiology

public class Epidemiology
extends Object

Epidemiology models.

Since:

1.0

Author:

Silvere Martin-Michiellot, Gemini AI (Google DeepMind)

Constructor Summary

Constructors

Constructor	Description
Epidemiology()

Method Summary

Modifier and Type	Method	Description
static Real	basicReproductionNumber(Real beta, Real gamma)	Basic reproduction number (R0).
static Real	herdImmunityThreshold(Real r0)	Herd immunity threshold.
static Real[][]	sirModel(Real S0, Real I0, Real R0, Real beta, Real gamma, Real dt, int steps)	SIR (Susceptible-Infectious-Recovered) model simulation. dS/dt = -beta * S * I / N dI/dt = beta * S * I / N - gamma * I dR/dt = gamma * I

Methods inherited from class Object

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

Constructor Details

Epidemiology

public Epidemiology()

Method Details

sirModel

public static Real[][] sirModel(Real S0,
 Real I0,
 Real R0,
 Real beta,
 Real gamma,
 Real dt,
 int steps)

SIR (Susceptible-Infectious-Recovered) model simulation. dS/dt = -beta * S * I / N dI/dt = beta * S * I / N - gamma * I dR/dt = gamma * I

Parameters:

S0 - Initial susceptible

I0 - Initial infectious

R0 - Initial recovered

beta - Transmission rate

gamma - Recovery rate

dt - Time step

steps - Number of steps

Returns:

Real[][] with columns [S, I, R] and rows = steps

basicReproductionNumber

public static Real basicReproductionNumber(Real beta,
 Real gamma)

Basic reproduction number (R0). R0 = beta / gamma

herdImmunityThreshold

public static Real herdImmunityThreshold(Real r0)

Herd immunity threshold. HIT = 1 - 1/R0