Package: HHBayes
Title: Bayesian Household Transmission Modeling
Version: 0.0.0.9000
Authors@R: c(
  person(given = "Ke", family = "Li",
         email = "ke.li.kl662@yale.edu",
         role = c("aut","cre")),
  person(given = "Yiren", family = "Hou",
         email = "yiren.hou@yale.edu",
         role = c("aut"))
	)
Description: Provides a streamlined pipeline to simulate household
        infection dynamics, estimate transmission parameters, and
        visualize epidemic timelines. Uses a Bayesian approach with
        Stan that models transmission probability as a Function of
        viral load, seasonality and infectivity, multiple infection
        episodes (reinfections), and waning immunity modeling.
License: MIT + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Funding: This work was supported by a grant from the National
        Institutes of Health (R01AI137093). The content is solely the
        responsibility of the authors and does not necessarily
        represent the official views of the National Institutes of
        Health.
Biarch: true
Depends: R (>= 3.4.0)
Imports: methods, Rcpp (>= 0.12.0), rstan (>= 2.18.1), rstantools (>=
        2.4.0), dplyr, ggplot2, tidyr, ggpubr, scales, deSolve, rlang
LinkingTo: BH (>= 1.66.0), Rcpp (>= 0.12.0), RcppEigen (>= 0.3.3.3.0),
        RcppParallel (>= 5.0.1), rstan (>= 2.18.1), StanHeaders (>=
        2.18.0)
SystemRequirements: GNU make
Suggests: knitr, rmarkdown, RcppParallel (>= 5.0.1), cowplot
VignetteBuilder: knitr
URL: https://github.com/keli5734/HHBayes
BugReports: https://github.com/keli5734/HHBayes/issues
Config/pak/sysreqs: cmake make libicu-dev
Repository: https://keli5734.r-universe.dev
Date/Publication: 2026-08-26 19:38:59 UTC
RemoteUrl: https://github.com/keli5734/hhbayes
RemoteRef: HEAD
RemoteSha: 3a26683b82f85348f4f4fcf7e69b2fae6744f7c5
NeedsCompilation: yes
Packaged: 2026-08-26 21:53:18 UTC; root
Author: Ke Li [aut, cre],
  Yiren Hou [aut]
Maintainer: Ke Li <ke.li.kl662@yale.edu>