Description: Datasets of driving offences and fines in New Zealand between 2009 and 2017.

Title: Reconstruction of Transmission Chains from Surveillance Data
Authors@R: c(person("Alexis", "Robert", email = "alexis.robert@lshtm.ac.uk", role = c("aut", "cre", "cph"), comment = c(ORCID = "0000-0002-4516-2965")),
person("Sebastian", "Funk", email = "sebastian.funk@lshtm.ac.uk", role = c("aut"), comment = c(ORCID = "0000-0002-2842-3406")),
person("Adam J", "Kucharski", email = "adam.kucharski@lshtm.ac.uk", role = c("aut"), comment = c(ORCID = "0000-0001-8814-9421")),
person("Thibaut", "Jombart", role = c("ctb")))
Description: 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>).
Imports: Rcpp, methods, stats, grDevices, ape, geosphere, ggplot2,
Suggests: testthat, tigris, sf, knitr, socialmixr, rmarkdown
Packaged: 2020-08-25 11:58:20 UTC; Alexis Robert
Author: Alexis Robert [aut, cre, cph] (<https://orcid.org/0000-0002-4516-2965>),

Imports: Rcpp, methods, stats, grDevices, geosphere, ggplot2,
Packaged: 2020-09-23 21:20:59 UTC; Alexis Robert

Description: Provides functions to do 'O2PLS-DA' analysis for multiple omics data integration.
The algorithm came from "O2-PLS, a two-block (X±Y) latent variable regression (LVR) method with an integral OSC filter"
which published by Johan Trygg and Svante Wold at 2003 <doi:10.1002/cem.775>.
'O2PLS' is a bidirectional multivariate regression method that aims to separate the covariance between
two data sets (it was recently extended to multiple data sets) (Löfstedt and Trygg, 2011 <doi:10.1002/cem.1388>; Löfstedt et al., 2012 <doi:10.1016/j.aca.2013.06.026>)
from the systematic sources of variance being specific for each data set separately.
Imports: Rcpp (>= 1.0.7), dplyr, magrittr, parallel, ggplot2, ggrepel,