plotfit

Generic S3 method to plot either "R0.R" and "R0.sR" objects

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>Object for which the fit should be plotted.</dd> <dt>all</dt>
<dd>Should the whole epidemic curve be shown</dd> <dt>xscale</dt>
<dd>Scale to be adjusted on X axis. Can be "d" (day), "w" (week (default)), "f" (fornight), "m" (month).</dd> <dt>SB.dist</dt>
<dd>Should R distribution throughout the epidemic be plotted for SB method? (default: TRUE)</dd> <dt>...</dt>
<dd>parameters passed to plot.R</dd></dl>

Arguments

Author

Generic S3 method to plot either "R0.R" and "R0.sR" objects — plotfit

<dl>

 <dt>x</dt>
<dd>Object for which the fit should be plotted.</dd>

 <dt>all</dt>
<dd>Should the whole epidemic curve be shown</dd>

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

 <dt>SB.dist</dt>
<dd>Should R distribution throughout the epidemic be plotted for SB method? (default: TRUE)</dd>

 <dt>...</dt>
<dd>parameters passed to plot.R</dd>

</dl>

plotfit: Generic S3 method to plot either "R0.R" and "R0.sR" objects

Description

Usage

Arguments

Author

Details