Package: o2geosocial 1.1.3

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>).

Authors:Alexis Robert [aut, cre, cph], Sebastian Funk [aut], Adam J Kucharski [aut], Thibaut Jombart [ctb]

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o2geosocial.pdf |o2geosocial.html✨
o2geosocial/json (API)
NEWS

Peer review:

Bug tracker:https://github.com/alxsrobert/o2geosocial/issues

On CRAN:

baysian-inferencemarkov-chain-monte-carlotransmission-chain-reconstruction

8 exports 8 stars 1.71 score 57 dependencies 1 mentions 5 scripts 356 downloads

Last updated 3 months agofrom:1c3c709577. Checks:OK: 9. Indexed: yes.

Exports:create_configcreate_paramcustom_likelihoodscustom_movescustom_priorsoutbreakeroutbreaker_datapre_clustering

Dependencies:apebase64encbslibcachemclicolorspacedata.tabledigestevaluatefansifarverfastmapfontawesomefsgeosphereggplot2gluegtablehighrhtmltoolshtmlwidgetsisobandjquerylibjsonliteknitrlabelinglatticelifecyclemagrittrMASSMatrixmemoisemgcvmimemunsellnlmeoutbreaker2pillarpkgconfigR6rappdirsRColorBrewerRcpprlangrmarkdownsassscalessptibbletinytexutf8vctrsviridisLitevisNetworkwithrxfunyaml