nosoi: A Forward Agent-Based Transmission Chain Simulator

The aim of 'nosoi' (pronounced 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.

Version: 1.0.0
Depends: data.table (≥ 1.12.0), R (≥ 3.5.0)
Imports: utils (≥ 3.5.2), stats (≥ 3.5.2), methods (≥ 3.5.2), dplyr (≥ 0.8.0), magrittr (≥ 1.5), stringr (≥ 1.4.0), reshape2 (≥ 1.4.0), raster (≥ 2.8-19)
Suggests: testthat (≥ 2.1.0), knitr, rmarkdown, igraph, tidyverse, ggplot2, ggnetwork, intergraph, viridis, gganimate, gifski, png, ape (≥ 5.3), tidytree (≥ 0.2.4), treeio (≥ 1.6.2), ggtree (≥ 1.16.0)
Published: 2020-01-14
Author: Sebastian Lequime ORCID iD [aut, cre], Paul Bastide ORCID iD [aut], Simon Dellicour ORCID iD [aut], Philippe Lemey ORCID iD [aut], Guy Baele ORCID iD [aut]
Maintainer: Sebastian Lequime <sebastian.lequime at>
License: GPL-3
NeedsCompilation: no
Language: en-US
Materials: README NEWS
CRAN checks: nosoi results


Reference manual: nosoi.pdf
Vignettes: single-host-continuous
Package source: nosoi_1.0.0.tar.gz
Windows binaries: r-devel:, r-devel-gcc8:, r-release:, r-oldrel:
OS X binaries: r-release: nosoi_1.0.0.tgz, r-oldrel: nosoi_1.0.0.tgz


Please use the canonical form to link to this page.