getCumulative

Output of a nosoi simulation (object of class <code><a rd-options="" href="/link/nosoiSim?package=nosoi&version=1.0.0" data-mini-rdoc="nosoi::nosoiSim">nosoiSim</a></code>).

nosoi.output

This function computes from the output of a <code>nosoiSim</code> simulation the cumulative count of infected hosts at each time step of the simulation. The output is a <code><a rd-options="data.table:data.table-package" href="/link/data.table?package=nosoi&version=1.0.0&to=data.table%3Adata.table-package" data-mini-rdoc="data.table:data.table-package::data.table">data.table</a></code>.

The aim of 'nosoi' (pronounced no.si) is to provide a flexible agent-based stochastic transmission chain/epidemic simulator (Lequime et al. in prep). It is named after the daimones of plague, sickness and disease that escaped Pandora's jar in the Greek mythology. 'nosoi' is able to take into account the influence of multiple variable on the transmission process (e.g. dual-host systems (such as arboviruses), within-host viral dynamics, transportation, population structure), alone or taken together, to create complex but relatively intuitive epidemiological simulations.

Sebastian Lequime

nosoi

A Forward Agent-Based Transmission Chain Simulator

Paul Bastide

Simon Dellicour

Philippe Lemey

Guy Baele

getCumulative function

Output of a nosoi simulation (object of class <code><a rd-options='' href='nosoiSim'>nosoiSim</a></code>).

This function computes from the output of a <code>nosoiSim</code> simulation the cumulative count of infected hosts at each time step of the simulation. The output is a <code><a rd-options='data.table:data.table-package' href='data.table'>data.table</a></code>.

getCumulative: Gets the cumulative number of infected hosts for the full length of the simulation

Description

Usage

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See Also