CRAN/E | outbreaker2

outbreaker2

Bayesian Reconstruction of Disease Outbreaks by Combining Epidemiologic and Genomic Data

Installation

About

Bayesian reconstruction of disease outbreaks using epidemiological and genetic information. Jombart T, Cori A, Didelot X, Cauchemez S, Fraser C and Ferguson N. 2014. doi:10.1371/journal.pcbi.1003457. Campbell, F, Cori A, Ferguson N, Jombart T. 2019. doi:10.1371/journal.pcbi.1006930.

Citation outbreaker2 citation info
System requirements C++11

Key Metrics

Version 1.1.3
R ≥ 3.5.0
Published 2022-05-23 702 days ago
Needs compilation? yes
License MIT
License File
CRAN checks outbreaker2 results

Downloads

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Maintainer

Maintainer

Finlay Campbell

finlaycampbell93@gmail.com

Authors

Thibaut Jombart

aut

Finlay Campbell

aut / cre

Rich Fitzjohn

aut

Gerry Tonkin-Hill

ctb

Kristjan Eldjarn

ctb

Alexis Robert

ctb

Material

README
NEWS
Reference manual
Package source

In Views

Epidemiology

Vignettes

outbreaker2: Rcpp API
Using custom priors, likelihood, or movements in outbreaker2
Introduction to outbreaker2
outbreaker2: package overview

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

outbreaker2 archive

Depends

R ≥ 3.5.0

Imports

utils
methods
stats
grDevices
Rcpp
ape
ggplot2
magrittr
visNetwork

Suggests

coda
microbenchmark
testthat
knitr
rmarkdown
igraph
epicontacts
adegenet

LinkingTo

Rcpp

Reverse Imports

o2geosocial