Files in bernadette-eu/Bernadette
Bayesian Inference and Model Selection for Stochastic Epidemics
.Rbuildignore
.github/.gitignore
.github/workflows/R-CMD-check.yaml
.github/workflows/draft-pdf.yml
.gitignore
.travis.yml
Bernadette.Rproj
CODE_OF_CONDUCT.md
CONTRIBUTING.md
CRAN-SUBMISSION
DESCRIPTION
Example_files/Example_analysis.R
Example_files/Example_analysis0.R
Example_files/Experiment_v112.RData
LICENSE.md
NAMESPACE
NEWS.md
R/Bernadette-package.R
R/age_distribution.R
R/aggregate_age_distribution.R
R/aggregate_contact_matrix.R
R/aggregate_ifr_react.R
R/contact_matrix.R
R/countries_contact_matrix.R
R/countries_un.R
R/data.R
R/globals.R
R/infection_to_death.R
R/misc.R
R/plot_age_distribution.R
R/plot_contact_matrix.R
R/posterior_contactmatrix.R
R/posterior_infections.R
R/posterior_mortality.R
R/posterior_rt.R
R/posterior_transmrate.R
R/priors.R
R/stan_igbm.R
R/stan_igbm.fit.R
R/stanmodels.R
R/summary.stangbm.R
R/zzz.R
README.Rmd
README.md
README_files/figure-gfm/aggr_cm-1.png
README_files/figure-gfm/mortality_time_series-1.png
README_files/figure-gfm/mortality_time_series_subset-1.png
README_files/figure-gfm/unnamed-chunk-10-1.png
README_files/figure-gfm/unnamed-chunk-21-1.png
README_files/figure-gfm/unnamed-chunk-22-1.png
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README_files/figure-gfm/unnamed-chunk-27-1.png
README_files/figure-gfm/unnamed-chunk-28-1.png
README_files/figure-gfm/unnamed-chunk-29-1.png
README_files/figure-gfm/unnamed-chunk-30-1.png
README_files/figure-gfm/unnamed-chunk-5-1.png
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README_files/figure-gfm/unnamed-chunk-7-1.png
README_files/figure-gfm/unnamed-chunk-8-1.png
README_files/figure-gfm/unnamed-chunk-9-1.png
codecov.yml
configure
configure.win
cran-comments.md
data-raw/age_specific_counts.R
data-raw/import_contact_matrix.R
data/age_specific_cusum_infection_counts.rda
data/age_specific_infection_counts.rda
data/age_specific_mortality_counts.rda
data/contact_matrices.rda
inst/include/stan_meta_header.hpp
inst/stan/igbm.stan
man/Bernadette-package.Rd
man/age_distribution.Rd
man/age_specific_cusum_infection_counts.Rd
man/age_specific_infection_counts.Rd
man/age_specific_mortality_counts.Rd
man/aggregate_age_distribution.Rd
man/aggregate_contact_matrix.Rd
man/aggregate_ifr_react.Rd
man/contact_matrices.Rd
man/contact_matrix.Rd
man/countries_un.Rd
man/country_contact_matrices.Rd
man/itd_distribution.Rd
man/plot_age_distribution.Rd
man/plot_contact_matrix.Rd
man/plot_posterior_cm.Rd
man/plot_posterior_infections.Rd
man/plot_posterior_mortality.Rd
man/plot_posterior_rt.Rd
man/plot_posterior_transmrate.Rd
man/posterior_infections.Rd
man/posterior_mortality.Rd
man/posterior_rt.Rd
man/posterior_transmrate.Rd
man/priors.Rd
man/stan_igbm.Rd
man/summary.stanigbm.Rd
paper/Data_generating_mechanism_eps.eps
paper/apa.csl
paper/paper.Rmd
paper/paper.bib
paper/paper.md
src/Bernadette.dll
src/Makevars.txt
src/Makevars.win
src/RcppExports.cpp
src/stanExports_igbm.cc
src/stanExports_igbm.h
tests/spelling.R
tests/testthat.R
tests/testthat/helper-expectations.R
tests/testthat/test-age_distribution.R
tests/testthat/test-aggregate_age_distribution.R
tests/testthat/test-aggregate_contact_matrix.R
tests/testthat/test-aggregate_ifr_react.R
tests/testthat/test-contact_matrix.R
tests/testthat/test-itd_distribution.R
tests/testthat/test-plot_posterior_cm.R
tests/testthat/test-posterior_infections.R
tests/testthat/test-posterior_mortality.R
tests/testthat/test-posterior_transmrate.R
tests/testthat/test-stan_igbm.R
tests/testthat/test-summary.R
vignettes/.gitignore
vignettes/Bernadette.Rmd
