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>.
| Version: | 1.1.3 |
| Depends: | R (≥ 3.5.0) |
| Imports: | utils, methods, stats, grDevices, Rcpp, ape, ggplot2, magrittr, visNetwork |
| LinkingTo: | Rcpp |
| Suggests: | coda, microbenchmark, testthat, knitr, rmarkdown, igraph, epicontacts, adegenet |
| Published: | 2022-05-23 |
| DOI: | 10.32614/CRAN.package.outbreaker2 |
| Author: | Thibaut Jombart [aut], Finlay Campbell [aut, cre], Rich Fitzjohn [aut], Gerry Tonkin-Hill [ctb], Kristjan Eldjarn [ctb], Alexis Robert [ctb] |
| Maintainer: | Finlay Campbell <finlaycampbell93 at gmail.com> |
| License: | MIT + file LICENSE |
| NeedsCompilation: | yes |
| SystemRequirements: | C++11 |
| Citation: | outbreaker2 citation info |
| Materials: | README, NEWS |
| In views: | AnomalyDetection, Epidemiology |
| CRAN checks: | outbreaker2 results |
| Reference manual: | outbreaker2.html , outbreaker2.pdf |
| Vignettes: |
outbreaker2: Rcpp API (source, R code) Using custom priors, likelihood, or movements in outbreaker2 (source, R code) Introduction to outbreaker2 (source, R code) outbreaker2: package overview (source, R code) |
| Package source: | outbreaker2_1.1.3.tar.gz |
| Windows binaries: | r-devel: outbreaker2_1.1.3.zip, r-release: outbreaker2_1.1.3.zip, r-oldrel: outbreaker2_1.1.3.zip |
| macOS binaries: | r-release (arm64): outbreaker2_1.1.3.tgz, r-oldrel (arm64): outbreaker2_1.1.3.tgz, r-release (x86_64): outbreaker2_1.1.3.tgz, r-oldrel (x86_64): outbreaker2_1.1.3.tgz |
| Old sources: | outbreaker2 archive |
| Reverse imports: | o2geosocial |
| Reverse suggests: | o2ools |
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