A Bayesian Tool for Near Real-Time Estimation of the Reproduction Number

Estimation of the instantaneous reproduction number with Laplacian-P-splines following the methodology of Gressani et al.(2021) . The negative Binomial distribution is used to model the time series of case counts. Two methods are available for inference : (1) a sampling-free approach based on a maximum a posteriori calibration of the hyperparameter vector and (2) a fully stochastic approach with a Metropolis-within-Gibbs algorithm and Langevin diffusions for efficient sampling of the posterior distribution.


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install.packages("EpiLPS")

1.0.2 by Oswaldo Gressani, 16 days ago


< https://github.com/oswaldogressani/EpiLPS>


Report a bug at https://github.com/oswaldogressani/EpiLPS/issues


Browse source code at https://github.com/cran/EpiLPS


Authors: Oswaldo Gressani [aut, cre]


Documentation:   PDF Manual  


GPL-3 license


Imports Rcpp, coda, progress, crayon, MASS, EpiEstim, ggplot2, grDevices, gridExtra

Suggests rmarkdown, knitr

Linking to RcppArmadillo, Rcpp


See at CRAN