make_Q_SEI

Construct the infinitesimal generator matrix for (individual) adult female
infection dynamics. Adult females follow SEI (Susceptible-Exposed-Infectious)
style dynamics with a Gamma distributed EIP, with a mean duration 1/q and
variance 1/nq^2 (following shape-scale parameterization, EIP ~ Gamma(n,1/nq)).
This function only constructs the rate matrix for either a single mosquito or
cohort that all emerged at the same time (the rate matrix for a population
with emergence is infinite in dimension).

A simulation modeling framework which significantly extends capabilities from the
'MGDrivE' simulation package via a new mathematical and computational framework based on stochastic Petri nets.
For more information about 'MGDrivE', see our publication: Sánchez et al. (2019) <doi:10.1111/2041-210X.13318>
Some of the notable capabilities of 'MGDrivE2' include: incorporation of human populations,
epidemiological dynamics, time-varying parameters, and a continuous-time simulation
framework with various sampling algorithms for both deterministic and stochastic interpretations.
'MGDrivE2' relies on the genetic inheritance structures provided in package 'MGDrivE', so we
suggest installing that package initially.

Agastya Mondal

MGDrivE2

Mosquito Gene Drive Explorer 2

Sean L. Wu

Jared B. Bennett

Héctor Manuel Sánchez Castellanos

Tomás M. León

Andrew J. Dolgert

John M. Marshall

make_Q_SEI function

<dl><dt>q</dt>
<dd>related to scale parameter of Gamma distributed EIP (1/q is mean length of EIP)</dd>
<dt>n</dt>
<dd>shape parameter of Gamma distributed EIP</dd>
<dt>mu</dt>
<dd>mosquito mortality rate</dd>
<dt>c</dt>
<dd>human to mosquito transmission efficiency</dd>
<dt>a</dt>
<dd>human biting rate</dd>
<dt>x</dt>
<dd>prevalence of disease in humans</dd></dl>

Arguments

Rate Matrix (Q) for Adult Mosquito SEI Dynamics — make_Q_SEI

<dl>

<dt>q</dt>
<dd>related to scale parameter of Gamma distributed EIP (1/q is mean length of EIP)</dd>


<dt>n</dt>
<dd>shape parameter of Gamma distributed EIP</dd>


<dt>mu</dt>
<dd>mosquito mortality rate</dd>


<dt>c</dt>
<dd>human to mosquito transmission efficiency</dd>


<dt>a</dt>
<dd>human biting rate</dd>


<dt>x</dt>
<dd>prevalence of disease in humans</dd>

</dl>

make_Q_SEI: Rate Matrix (Q) for Adult Mosquito SEI Dynamics

Description

Usage

Value

Arguments