o2geosocial: Reconstruction of Transmission Chains from Surveillance Data
Bayesian reconstruction of who infected whom during past outbreaks using routinely-collected surveillance data. Inference of transmission trees using genotype, age specific social contacts, distance between cases and onset dates of the reported cases. (Robert A, Kucharski AJ, Gastanaduy PA, Paul P, Funk S. (2020) <doi:10.1098/rsif.2020.0084>).
| Version: | 1.1.3 |
| Depends: | R (≥ 3.5.0) |
| Imports: | Rcpp, methods, stats, grDevices,geosphere,ggplot2,visNetwork,data.table,outbreaker2 |
| LinkingTo: | Rcpp |
| Suggests: | testthat,tigris,sf,knitr,socialmixr,rmarkdown |
| Published: | 2024-06-21 |
| DOI: | 10.32614/CRAN.package.o2geosocial |
| Author: | Alexis Robert [aut, cre, cph], Sebastian Funk [aut], Adam J Kucharski [aut], Thibaut Jombart [ctb] |
| Maintainer: | Alexis Robert <alexis.robert at lshtm.ac.uk> |
| BugReports: | https://github.com/alxsrobert/o2geosocial/issues |
| License: | MIT + fileLICENSE |
| URL: | https://github.com/alxsrobert/o2geosocial |
| NeedsCompilation: | yes |
| Materials: | README,NEWS |
| In views: | Epidemiology |
| CRAN checks: | o2geosocial results |
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