SEIR_M2: Run SEIR model for Model 2

In lemdt/CovidShinyModel:

Description

Runs the SEIR model, incorporating the separate hospitalization Markov component. More about the technique is here: https://drive.google.com/file/d/157yB7O62xyJps2_HUtAelqsQ8e9feTj_/view?usp=sharing https://sites.me.ucsb.edu/~moehlis/APC514/tutorials/tutorial_seasonal/node4.html

Usage

SEIR_M2(S0, E0, I0, R0, beta.vector, num.days, influx, params)

Arguments

S0	Numeric. Initial number of susceptible individuals.
E0	Numeric. Initial number of exposed individuals.
I0	Numeric. Initial number of infected individuals.
R0	Numeric. Initial number of recovered individuals.
beta.vector	Vector, of beta values to use in the simulation on each day. Should have the same length as num.days.
num.days	Numeric. Number of days to run the simulation.
influx	List. This is hash consisting of a 'day' and an 'influx' number, meant to represent an influx of infections into the region
params	List. This should contain the parameters for running the SEIR, including sigma, gamma.r, gamma.h, hosp.rate, and the transition probabilities (p.g_g, p.g_icu, p.g_d)

Details

The simulation ignores births and deaths.

Value

Dataframe, with susceptible counts, exposed counts, infected counts, hospitalization numbers, recovery numbers, and death numbers.

lemdt/CovidShinyModel documentation built on May 10, 2020, 1:54 p.m.