plotfit

This method ensures compliance with CRAN checks etc. It is used to properly
call <code>plotfit.R0.R()</code> and <code>plotfit.R0.sR()</code> and build corresponding plots.

internal

Estimation of reproduction numbers for disease outbreak, based on
incidence data. The R0 package implements several documented methods. It is
therefore possible to compare estimations according to the methods used.
Depending on the methods requested by user, basic reproduction number
(commonly denoted as R0) or real-time reproduction number (referred to as
R(t)) is computed, along with a 95% Confidence Interval. Plotting outputs
will give different graphs depending on the methods requested : basic
reproductive number estimations will only show the epidemic curve
(collected data) and an adjusted model, whereas real-time methods will also
show the R(t) variations throughout the outbreak time period. Sensitivity
analysis tools are also provided, and allow for investigating effects of
varying Generation Time distribution or time window on estimates.

Thomas Obadia

Estimation of R0 and Real-Time Reproduction Number from
Epidemics

plotfit function

<dl><dt>x</dt>
<dd>An output of <code>estimate.R()</code> (class <code>R0.sR</code>) or <code>est.R0.xx()</code> (class <code>R0.R</code>).</dd>
<dt>xscale</dt>
<dd>Scale to be adjusted on x-axis. Can be <code>d</code> (day), <code>w</code> (week (default)), <code>f</code> (fornight), <code>m</code> (month).</dd>
<dt>SB.dist</dt>
<dd>Boolean. Should the R distirbution throughout the epidemic be plotted for the SB method (defaults to <code>TRUE</code>) ?</dd>
<dt>...</dt>
<dd>Parameters passed to inner functions.</dd></dl>

Arguments

Author

S3 method for objects of class R0.R or R0.sR — plotfit

<dl>

<dt>x</dt>
<dd>An output of <code>estimate.R()</code> (class <code>R0.sR</code>) or <code>est.R0.xx()</code> (class <code>R0.R</code>).</dd>


<dt>xscale</dt>
<dd>Scale to be adjusted on x-axis. Can be <code>d</code> (day), <code>w</code> (week (default)), <code>f</code> (fornight), <code>m</code> (month).</dd>


<dt>SB.dist</dt>
<dd>Boolean. Should the R distirbution throughout the epidemic be plotted for the SB method (defaults to <code>TRUE</code>) ?</dd>


<dt>...</dt>
<dd>Parameters passed to inner functions.</dd>

</dl>

plotfit: S3 method for objects of class `R0.R` or `R0.sR`

Description

Usage

Value

Arguments

Author

Details