Files in outbreaker2
Bayesian Reconstruction of Disease Outbreaks by Combining Epidemiologic and Genomic Data

MD5
NEWS.md
LICENSE
DESCRIPTION
README.md
NAMESPACE
inst/CITATION
inst/doc/introduction.R inst/doc/introduction.Rmd
inst/doc/customisation.html
inst/doc/Rcpp_API.R inst/doc/overview.R
inst/doc/overview.html
inst/doc/overview.Rmd inst/doc/customisation.R inst/doc/customisation.Rmd inst/doc/Rcpp_API.Rmd
inst/doc/introduction.html
inst/doc/Rcpp_API.html
vignettes/introduction.Rmd vignettes/overview.Rmd vignettes/customisation.Rmd vignettes/Rcpp_API.Rmd
vignettes/figs-introduction/w-1.png
vignettes/figs-introduction/many_plots-3.png
vignettes/figs-introduction/config2-1.png
vignettes/figs-introduction/many_plots-5.png
vignettes/figs-introduction/config2-2.png
vignettes/figs-introduction/traces-2.png
vignettes/figs-introduction/many_plots-4.png
vignettes/figs-introduction/basic_trace_burn-1.png
vignettes/figs-introduction/many_plots-2.png
vignettes/figs-introduction/traces-3.png
vignettes/figs-introduction/traces-4.png
vignettes/figs-introduction/basic_trace-1.png
vignettes/figs-introduction/many_plots-1.png
vignettes/figs-introduction/traces-1.png
vignettes/figs-customisation/res_null_model-1.png
vignettes/figs-customisation/run_custom_move_mu-1.png
vignettes/figs-customisation/traces_custom_priors-1.png
vignettes/figs-customisation/res_null_model-3.png
vignettes/figs-customisation/wt_net-1.png
vignettes/figs-customisation/traces_custom_priors-2.png
vignettes/figs-customisation/null_net-2.png
vignettes/figs-customisation/res_new_move-1.png
vignettes/figs-customisation/f_pi-1.png
vignettes/figs-customisation/run_custom_move_mu-3.png
vignettes/figs-customisation/res_null_diag-1.png
vignettes/figs-customisation/res_wt-1.png
vignettes/figs-customisation/null_trees-1.png
vignettes/figs-customisation/run_custom_move_mu-2.png
vignettes/figs-customisation/res_wt-2.png
vignettes/figs-customisation/res_null_priors-2.png
vignettes/figs-customisation/traces_custom_priors-5.png
vignettes/figs-customisation/res_new_move-2.png
vignettes/figs-customisation/res_null_priors-1.png
vignettes/figs-customisation/res_wt-3.png
vignettes/figs-customisation/res_null_diag-2.png
vignettes/figs-customisation/traces_custom_priors-3.png
vignettes/figs-customisation/res_null_model-2.png
vignettes/figs-customisation/traces_custom_priors-4.png
vignettes/figs-customisation/null_net-1.png
R/custom_moves.R R/sim_ctd.R R/create_config.R R/zzz.R R/get_cpp_api.R R/palettes.R R/package.R R/create_param.R R/custom_priors.R R/outbreaker_find_imports.R R/outbreaker_move.R R/ref_likelihoods.R R/bind_moves.R R/RcppExports.R R/bind_to_function.R R/ref_priors.R R/outbreaker_init_mcmc.R R/outbreaker_mcmc_store.R R/outbreaker_data.R R/internals.R R/outbreaker_chains_methods.R R/custom_likelihoods.R R/doc_data.R R/outbreaker_mcmc_shape.R R/outbreaker.R
src/moves.cpp
src/moves.h
src/RcppExports.cpp
src/internals.h
src/likelihoods.cpp
src/likelihoods.h
src/priors.cpp
src/priors.h
src/internals.cpp
man/create_param.Rd man/outbreaker_chains.Rd man/create_config.Rd man/palettes.Rd man/fake_outbreak.Rd man/sim_ctd.Rd man/outbreaker_package.Rd man/get_cpp_api.Rd man/bind_to_function.Rd man/custom_moves.Rd man/custom_priors.Rd man/outbreaker.Rd man/outbreaker_data.Rd man/custom_likelihoods.Rd
build/vignette.rds
tests/testthat.R tests/testthat/test_data.R tests/testthat/test_moves.R tests/testthat/test_outbreaker.R tests/testthat/test_likelihoods.R tests/testthat/test_sim_ctd.R tests/testthat/test_non_exported.R tests/testthat/test_config.R tests/testthat/test_priors.R tests/testthat/test_find_imports.R tests/testthat/test_binding.R
data/fake_outbreak.RData
outbreaker2 documentation built on March 18, 2018, 1:19 p.m.