base_gen

This function takes a given stage and summarizes them by genotype, writing
output to provided folders.

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

base_gen function

<dl><dt>fileVec</dt>
<dd>Vector of files for analysis</dd>
<dt>outList</dt>
<dd>List of files, organized by repetition, to write output</dd>
<dt>genos</dt>
<dd>Genotypes to summarize by</dd>
<dt>nGenos</dt>
<dd>Number of genotypes</dd>
<dt>nIDX1</dt>
<dd>First index to expand over, nE/nL/nP for aquatic stages, 1 for the rest</dd>
<dt>times</dt>
<dd>Vector of sampling times</dd>
<dt>nTimes</dt>
<dd>Number of sampled times</dd>
<dt>nNodes</dt>
<dd>Number of nodes in the network</dd></dl>

Arguments

Base Summary for Eggs, Larvae, Pupae, Susceptible Females, and Infectious Females — base_gen

<dl>

<dt>fileVec</dt>
<dd>Vector of files for analysis</dd>


<dt>outList</dt>
<dd>List of files, organized by repetition, to write output</dd>


<dt>genos</dt>
<dd>Genotypes to summarize by</dd>


<dt>nGenos</dt>
<dd>Number of genotypes</dd>


<dt>nIDX1</dt>
<dd>First index to expand over, nE/nL/nP for aquatic stages, 1 for the rest</dd>


<dt>times</dt>
<dd>Vector of sampling times</dd>


<dt>nTimes</dt>
<dd>Number of sampled times</dd>


<dt>nNodes</dt>
<dd>Number of nodes in the network</dd>

</dl>

base_gen: Base Summary for Eggs, Larvae, Pupae, Susceptible Females, and Infectious Females

Description

Usage

Value

Arguments

Details