gamma

dgammaRk

pgammaRk

<ul>
<li><code>dgammaRk()</code> for the gamma density function</li>
<li><code>pgammaRk()</code> for the gamma distribution function</li>
<li><code>fvx()</code> fore the gamma probability density function (pdf) describing the
individual reproductive number \(\nu\) given R0 and k</li>
</ul>

internal

Estimate and understand individual-level variation in
transmission. Implements density and cumulative compound Poisson
discrete distribution functions (Kremer et al. (2021)
<doi:10.1038/s41598-021-93578-x>), as well as functions to calculate
infectious disease outbreak statistics given epidemiological
parameters on individual-level transmission; including the probability
of an outbreak becoming an epidemic/extinct (Kucharski et al. (2020)
<doi:10.1016/S1473-3099(20)30144-4>), or the cluster size
statistics, e.g. what proportion of cases cause X\% of transmission
(Lloyd-Smith et al. (2005) <doi:10.1038/nature04153>).

Joshua W. Lambert

superspreading

Understand Individual-Level Variation in Infectious Disease
Transmission

Adam Kucharski

Dillon C. Adam

Sebastian Funk

Pratik Gupte

Hugo Gruson

James M. Azam

Chris Hartgerink

gamma function

<dl><dt>R</dt>
<dd>A <code>number</code> specifying the \(R\) parameter (i.e. average
secondary cases per infectious individual).</dd>
<dt>k</dt>
<dd>A <code>number</code> specifying the \(k\) parameter (i.e. dispersion in
offspring distribution from fitted negative binomial).</dd></dl>

Arguments

Defines the gamma functions in terms of the mean reproductive number
(R) and the dispersion parameter (k) — gamma

<dl>

<dt>R</dt>
<dd>A <code>number</code> specifying the \(R\) parameter (i.e. average
secondary cases per infectious individual).</dd>


<dt>k</dt>
<dd>A <code>number</code> specifying the \(k\) parameter (i.e. dispersion in
offspring distribution from fitted negative binomial).</dd>

</dl>

Defines the gamma functions in terms of the mean reproductive number
(R) and the dispersion parameter (k)

gamma: Defines the gamma functions in terms of the mean reproductive number (R) and the dispersion parameter (k)

Description

Usage

Arguments