nycH1N1

These observations on the incubation period of influenza A come from the investigation of the H1N1 outbreak in NYC schools in the spring of 2009. They report doubly interval-censored observations for the incubation period.

datasets

Functions to analyze coarse data.
Specifically, it contains functions to (1) fit parametric accelerated
failure time models to interval-censored survival time data, and (2)
estimate the case-fatality ratio in scenarios with under-reporting.
This package's development was motivated by applications to infectious
disease: in particular, problems with estimating the incubation period and
the case fatality ratio of a given disease. Sample data files are included
in the package. See Reich et al. (2009) <doi:10.1002/sim.3659>,
Reich et al. (2012) <doi:10.1111/j.1541-0420.2011.01709.x>, and
Lessler et al. (2009) <doi:10.1016/S1473-3099(09)70069-6>.

Nicholas G. Reich

coarseDataTools

Analysis of Coarsely Observed Data

Justin Lessler

Andrew Azman

Zhian N. Kamvar

Hugo Gruson

nycH1N1 function

A data frame with 134 observations on the following 5 variables.<dl>
<dt><code>EL</code></dt>
<dd>the earliest possible time of infection</dd><dt><code>ER</code></dt>
<dd>the latest possible time of infection</dd><dt><code>SL</code></dt>
<dd>the earliest possible time of symptom onset</dd><dt><code>SR</code></dt>
<dd>the latest possible time of symptom onset</dd><dt><code>type</code></dt>
<dd>an indicator of the type of observation: 0 for doubly interval-censored, 1 for single-interval censored, 2 for exact. All of these observations are doubly interval-censored.</dd></dl>

Format

Incubation period data from New York City Public Schools, 2009 H1N1 influenza outbreak — nycH1N1

A data frame with 134 observations on the following 5 variables.<dl>
<dt><code>EL</code></dt>
<dd>the earliest possible time of infection</dd>

<dt><code>ER</code></dt>
<dd>the latest possible time of infection</dd>

<dt><code>SL</code></dt>
<dd>the earliest possible time of symptom onset</dd>

<dt><code>SR</code></dt>
<dd>the latest possible time of symptom onset</dd>

<dt><code>type</code></dt>
<dd>an indicator of the type of observation: 0 for doubly interval-censored, 1 for single-interval censored, 2 for exact. All of these observations are doubly interval-censored.</dd>

</dl>

nycH1N1: Incubation period data from New York City Public Schools, 2009 H1N1 influenza outbreak

Description

Usage

Arguments

Format

Examples