intersperse

This function modifies an object inheriting from class <code>"epidata"</code> such 
 that it features the specified stop time points. For this purpose, the time 
 interval in the event history into which the new stop falls will be split 
 up into two parts, one block for the time period until the new stop -- where 
 no infection or removal occurs -- and the other block for the time period 
 from the new stop to the end of the original interval. 
 Main application is to enable the use of <code>knots</code> in <code>twinSIR</code>, which
 are not existing stop time points in the <code>"epidata"</code> object.

manip

spatial

epidata_intersperse

Statistical methods for the modeling and monitoring of time series
of counts, proportions and categorical data, as well as for the modeling
of continuous-time point processes of epidemic phenomena.
The monitoring methods focus on aberration detection in count data time
series from public health surveillance of communicable diseases, but
applications could just as well originate from environmetrics,
reliability engineering, econometrics, or social sciences. The package
implements many typical outbreak detection procedures such as the
(improved) Farrington algorithm, or the negative binomial GLR-CUSUM
method of Hoehle and Paul (2008) <doi:10.1016/j.csda.2008.02.015>.
A novel CUSUM approach combining logistic and multinomial logistic
modeling is also included. The package contains several real-world data
sets, the ability to simulate outbreak data, and to visualize the
results of the monitoring in a temporal, spatial or spatio-temporal
fashion. A recent overview of the available monitoring procedures is
given by Salmon et al. (2016) <doi:10.18637/jss.v070.i10>.
For the retrospective analysis of epidemic spread, the package provides
three endemic-epidemic modeling frameworks with tools for visualization,
likelihood inference, and simulation. hhh4() estimates models for
(multivariate) count time series following Paul and Held (2011)
<doi:10.1002/sim.4177> and Meyer and Held (2014) <doi:10.1214/14-AOAS743>.
twinSIR() models the susceptible-infectious-recovered (SIR) event
history of a fixed population, e.g, epidemics across farms or networks,
as a multivariate point process as proposed by Hoehle (2009)
<doi:10.1002/bimj.200900050>. twinstim() estimates self-exciting point
process models for a spatio-temporal point pattern of infective events,
e.g., time-stamped geo-referenced surveillance data, as proposed by
Meyer et al. (2012) <doi:10.1111/j.1541-0420.2011.01684.x>.
A recent overview of the implemented space-time modeling frameworks
for epidemic phenomena is given by Meyer et al. (2017)
<doi:10.18637/jss.v077.i11>.

Sebastian Meyer

surveillance

Temporal and Spatio-Temporal Modeling and Monitoring of Epidemic
Phenomena

Sophie Reichert

Andrea Riebler

Daniel Sabanes Bove

Stefan Steiner

Mikko Virtanen

Wei Wei

Valentin Wimmer

R Core Team 

Howard Burkom

Thais Correa

Mathias Hofmann

Christian Lang

Juliane Manitz

Dirk Schumacher

Leonhard Held

Michael Hoehle

Michaela Paul

Maelle Salmon

epidata_intersperse function

<dl> <dt>epidata</dt>
<dd>an object inheriting from class <code>"epidata"</code>.</dd> <dt>stoptimes</dt>
<dd>a numeric vector of time points inside the observation period of the
 <code>epidata</code>.</dd> <dt>verbose</dt>
<dd>logical indicating if a <code><a href="/link/txtProgressBar?package=surveillance&version=1.24.0" data-mini-rdoc="surveillance::txtProgressBar">txtProgressBar</a></code> should be shown
 while inserting blocks for extra <code>stoptimes</code>.</dd></dl>

Arguments

Author

This function modifies an object inheriting from class <code>"epidata"</code> such 
 that it features the specified stop time points. For this purpose, the time 
 interval in the event history into which the new stop falls will be split 
 up into two parts, one block for the time period until the new stop -- where 
 no infection or removal occurs -- and the other block for the time period 
 from the new stop to the end of the original interval. 
 Main application is to enable the use of <code>knots</code> in <code>twinSIR</code>, which
 are not existing stop time points in the <code>"epidata"</code> object.

Impute Blocks for Extra Stops in "epidata" Objects — epidata_intersperse

<dl>

 <dt>epidata</dt>
<dd>an object inheriting from class <code>"epidata"</code>.</dd>

 <dt>stoptimes</dt>
<dd>a numeric vector of time points inside the observation period of the
 <code>epidata</code>.</dd>

 <dt>verbose</dt>
<dd>logical indicating if a <code><a href='https://rdrr.io/r/utils/txtProgressBar.html'>txtProgressBar</a></code> should be shown
 while inserting blocks for extra <code>stoptimes</code>.</dd>

</dl>

Impute Blocks for Extra Stops in <code>"epidata"</code> Objects

epidata_intersperse: Impute Blocks for Extra Stops in `"epidata"` Objects

Description

Usage

Value

Arguments

Author

See Also

Examples