Files in MingweiWilliamTang/LNAphyloDyn
Bayesian inference on coalescent-based phylodynamics using linear noise approximation
.Rbuildignore
.gitignore
DESCRIPTION
LNAPhyloDyn.Rproj
LNAstan/Changepoint_test.stan
LNAstan/LNA_Stan_V1.stan
LNAstan/LNA_Stan_V2.stan
LNAstan/LNA_Stan_V3.stan
LNAstan/LNA_Stan_V4.stan
LNAstan/LNA_Stan_V5.stan
LNAstan/LNA_Stan_change_point.stan
LNAstan/LNAstan.stan
LNAstan/OdeStan.stan
NAMESPACE
R/#testfuntions.R#
R/ESliceSampling.R
R/LNAPhyloDyn-package.R
R/LNA_chpt_slice.R
R/Period_MCMC.R
R/RcppExports.R
R/SIR_BD_MCMC.R
R/SIR_LNA_MCMC_log.R
R/SIR_LNA_standard.R
R/StructuralMCMC.R
R/basic.R
R/coal_simulation.R
R/general_change_point.R
R/plotfuns.R
R/stan_init.R
R/testfuntions.R
README.md
data/Ebola_Sierra_Leone2014.RData
inst/SIR_phydyn_example.xml
man/ESlice.Rd
man/Like_Free.Rd
man/MCMC_initialize.Rd
man/SIR_LNA_ESlice_MCMC.Rd
man/SIR_LNA_ESlice_MCMC2.Rd
man/SIR_LNA_ESlice_MCMC4.Rd
src/.gitignore
src/LNA_NS_general.cpp
src/LNA_functional.cpp
src/LNA_functional.h
src/RcppExports.cpp
src/SIRS.cpp
src/SIRS_period.cpp
src/SIR_BD.cpp
src/SIR_LNA.cpp
src/SIR_LNA.h
src/SIR_log_LNA.cpp
src/SIR_log_LNA.h
src/SIR_phylodyn.cpp
src/SIR_phylodyn.h
src/StructuralCoal.cpp
src/basic_util.cpp
src/basic_util.h
src/generalLNA.cpp
tests/testthat.R
tests/testthat/testStructureCoal.R
vignettes/Changpoint_sim.Rmd
vignettes/Changpoint_sim_cache/html/MCMC_518601a265bb7a08541cb5357f32eb40.RData
vignettes/Changpoint_sim_cache/html/MCMC_518601a265bb7a08541cb5357f32eb40.rdb
vignettes/Changpoint_sim_cache/html/MCMC_518601a265bb7a08541cb5357f32eb40.rdx
vignettes/Changpoint_sim_cache/html/__packages
vignettes/Changpoint_sim_cache/html/show_res_871afd9f2bd5e845285bb6a045633f9c.RData
vignettes/Changpoint_sim_cache/html/show_res_871afd9f2bd5e845285bb6a045633f9c.rdb
vignettes/Changpoint_sim_cache/html/show_res_871afd9f2bd5e845285bb6a045633f9c.rdx
vignettes/Ebola_sierra_leone2014.Rmd
vignettes/constant_sim.Rmd
vignettes/constant_sim_cache/markdown_github/MCMC_f493722c202b7d35d3f27478a55da1b3.RData
vignettes/constant_sim_cache/markdown_github/MCMC_f493722c202b7d35d3f27478a55da1b3.rdb
vignettes/constant_sim_cache/markdown_github/MCMC_f493722c202b7d35d3f27478a55da1b3.rdx
vignettes/constant_sim_cache/markdown_github/__packages
vignettes/constant_sim_cache/markdown_github/show sim_res_3ef9e8e9b18756d9055547ef6d733626.RData
vignettes/constant_sim_cache/markdown_github/show sim_res_3ef9e8e9b18756d9055547ef6d733626.rdb
vignettes/constant_sim_cache/markdown_github/show sim_res_3ef9e8e9b18756d9055547ef6d733626.rdx
