plot.R0.R

Generates the graphical output for an estimated \(R\) or \(R(t)\). The
graph depends on the estimation method. In general, the estimated value is
presented along with its confidence interval.

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

plot.R0.R function

<dl><dt>x</dt>
<dd>An estimated object, output from <code>est.R0.xx()</code> routines (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>TD.split</dt>
<dd>Boolean. Parameter to force the display of both \(R(t)\) and the epidemic curve in the same window for the TD method.</dd>
<dt>...</dt>
<dd>Parameters passed to inner functions.</dd></dl>

Arguments

Author

Plot the R0/Rt value along with confidence interval — plot.R0.R

<dl>

<dt>x</dt>
<dd>An estimated object, output from <code>est.R0.xx()</code> routines (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>TD.split</dt>
<dd>Boolean. Parameter to force the display of both \(R(t)\) and the epidemic curve in the same window for the TD method.</dd>


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

</dl>

plot.R0.R: Plot the R0/Rt value along with confidence interval

Description

Usage

Value

Arguments

Author

Details