get_individuals

get_individuals,SimInf_indiv_events-method

Lookup individuals, in which node they are located and their age
at a specified time-point.

Provides an efficient and very flexible framework to
conduct data-driven epidemiological modeling in realistic large
scale disease spread simulations. The framework integrates
infection dynamics in subpopulations as continuous-time Markov
chains using the Gillespie stochastic simulation algorithm and
incorporates available data such as births, deaths and movements
as scheduled events at predefined time-points. Using C code for
the numerical solvers and 'OpenMP' (if available) to divide work
over multiple processors ensures high performance when simulating
a sample outcome. One of our design goals was to make the package
extendable and enable usage of the numerical solvers from other R
extension packages in order to facilitate complex epidemiological
research. The package contains template models and can be extended
with user-defined models. For more details see the paper by
Widgren, Bauer, Eriksson and Engblom (2019)
<doi:10.18637/jss.v091.i12>. The package also provides
functionality to fit models to time series data using the
Approximate Bayesian Computation Sequential Monte Carlo
('ABC-SMC') algorithm of Toni and others (2009)
<doi:10.1098/rsif.2008.0172>.

Stefan Widgren

SimInf

A Framework for Data-Driven Stochastic Disease Spread
Simulations

Robin Eriksson

Stefan Engblom

Pavol Bauer

Thomas Rosendal

Ivana Rodriguez Ewerlöf

Attractive Chaos 

get_individuals function

<dl><dt>x</dt>
<dd>an individual events object of class
<code>SimInf_indiv_events</code>.</dd>
<dt>time</dt>
<dd>the time-point for the lookup of individuals. Default
is <code>NULL</code> which means to extract the individuals at the
minimum time-point in the events object <code>x</code>.</dd></dl>

Arguments

Extract individuals from SimInf_indiv_events — get_individuals

<dl>

<dt>x</dt>
<dd>an individual events object of class
<code>SimInf_indiv_events</code>.</dd>


<dt>time</dt>
<dd>the time-point for the lookup of individuals. Default
is <code>NULL</code> which means to extract the individuals at the
minimum time-point in the events object <code>x</code>.</dd>

</dl>

get_individuals: Extract individuals from `SimInf_indiv_events`

Description

Usage

Value

Arguments