gen_exp

A helper function only needed within AP_insect_simulator that generates random numbers from an exponential distribution
using the base/stats R function <code><a href="/link/stats%3A%3Arunif?package=EpiPvr&version=0.0.1" data-mini-rdoc="EpiPvr::stats::runif">stats::runif</a></code>.
This function simulates a set of random numbers with a fixed rate safely (ie for different input cases stemming from virus types).

internal

Provides functions for estimating plant pathogen parameters from
access period (AP) experiments. Separate functions are implemented for
semi-persistently transmitted (SPT) and persistently transmitted (PT)
pathogens. The common AP experiment exposes insect cohorts to infected source
plants, healthy test plants, and intermediate plants (for PT pathogens). The
package allows estimation of acquisition and inoculation rates during feeding,
recovery rates, and latent progression rates (for PT pathogens). Additional
functions support inference of epidemic risk from pathogen and local
parameters, and also simulate AP experiment data. The functions implement
probability models for epidemiological analysis, as derived in Donnelly et
al. (2025), <doi:10.32942/X29K9P>. These models were originally
implemented in the 'EpiPv' 'GitHub' package.

Ruairi Donnelly

EpiPvr

Estimating Plant Pathogen Epidemiology Parameters from
Laboratory Assays

gen_exp function

<dl><dt>n</dt>
<dd>Numeric: number of points to sample.</dd>
<dt>rin</dt>
<dd>Numeric: event rate.</dd>
<dt>virusType</dt>
<dd>Character: SPT or PT plant virus type.</dd></dl>

Arguments

A helper function only needed within AP_insect_simulator that generates random numbers from an exponential distribution
using the base/stats R function <code><a href='https://rdrr.io/r/stats/Uniform.html'>stats::runif</a></code>.
This function simulates a set of random numbers with a fixed rate safely (ie for different input cases stemming from virus types).

Safely generate random exponential data — gen_exp

<dl>

<dt>n</dt>
<dd>Numeric: number of points to sample.</dd>


<dt>rin</dt>
<dd>Numeric: event rate.</dd>


<dt>virusType</dt>
<dd>Character: SPT or PT plant virus type.</dd>

</dl>

gen_exp: Safely generate random exponential data

Description

Usage

Value

Arguments