Files in jameshay218/antibodyKinetics
antibodyKinetics

.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
Makefile
NAMESPACE
R/RcppExports.R R/analyses.R R/exampleExposureTab.R R/exampleParTab.R R/exposure_times.R R/ferret_titres.R R/helper.R R/inference.R R/mcmc.R R/model.R R/model_creation.R R/package.R R/plots.R R/posteriors.R R/runParamViewer.R README.md
data/exampleExposureTab.RData
data/exampleParTab.RData
data/exposure_times.RData
data/ferret_titres.RData
inputs/exposureTabs/A_exposureTab.csv
inputs/exposureTabs/B_exposureTab.csv
inputs/exposureTabs/C_exposureTab.csv
inputs/exposureTabs/D_exposureTab.csv
inputs/exposureTabs/E_exposureTab.csv
inputs/exposureTabs/F_exposureTab.csv
inputs/parTabs/A_parTab.csv
inputs/parTabs/B_parTab.csv
inputs/parTabs/C_parTab.csv
inputs/parTabs/D_parTab.csv
inputs/parTabs/E_parTab.csv
inputs/parTabs/F_parTab.csv
inputs/parTabs/G_parTab.csv
inputs/parTabs/H_parTab.csv
inputs/parTabs/I_parTab.csv
inputs/real_data_simple.csv
inputs/run_key.csv
inputs/run_tracker.csv
inst/doc/images/param_tab_1.png
inst/doc/images/param_tab_2.png
inst/doc/images/param_tab_3.png
inst/doc/model_fitting.Rmd
inst/doc/model_fitting.html
inst/doc/paramViewer.Rmd
inst/doc/paramViewer.html
inst/shiny-examples/paramViewer/Parameters/.~lock.exposureTab_full.csv#
inst/shiny-examples/paramViewer/Parameters/A.csv
inst/shiny-examples/paramViewer/Parameters/B.csv
inst/shiny-examples/paramViewer/Parameters/antigenicDistTab.csv
inst/shiny-examples/paramViewer/Parameters/base.R
inst/shiny-examples/paramViewer/Parameters/exposureTab_base.csv
inst/shiny-examples/paramViewer/Parameters/exposureTab_full.csv
inst/shiny-examples/paramViewer/Parameters/exposureTab_full2.csv
inst/shiny-examples/paramViewer/Parameters/exposureTab_full_priming.csv
inst/shiny-examples/paramViewer/Parameters/exposureTest2.csv
inst/shiny-examples/paramViewer/Parameters/full.R
inst/shiny-examples/paramViewer/Parameters/parTab_base.csv
inst/shiny-examples/paramViewer/Parameters/parTab_full.csv
inst/shiny-examples/paramViewer/Parameters/parTab_full2.csv
inst/shiny-examples/paramViewer/Parameters/test2.csv
inst/shiny-examples/paramViewer/Parameters/testExposureTab.csv
inst/shiny-examples/paramViewer/Parameters/testParTab.csv
inst/shiny-examples/paramViewer/cr_management.R inst/shiny-examples/paramViewer/cr_table.R inst/shiny-examples/paramViewer/exposure_management.R inst/shiny-examples/paramViewer/exposure_table.R inst/shiny-examples/paramViewer/exposure_table_management.R inst/shiny-examples/paramViewer/global_parameters.R inst/shiny-examples/paramViewer/helpers.R inst/shiny-examples/paramViewer/plots.R inst/shiny-examples/paramViewer/server.R inst/shiny-examples/paramViewer/tmp.R inst/shiny-examples/paramViewer/ui.R man/add_noise.Rd man/calc_deviance.Rd man/calc_post_mean.Rd man/calc_post_var.Rd man/calculate_BIC.Rd man/calculate_DIC.Rd man/calculate_WAIC.Rd man/calculate_x.Rd man/convert_options_to_runName.Rd man/convert_runName_to_options.Rd man/create_model_func.Rd man/create_model_group_func.Rd man/create_model_group_func_cpp.Rd man/exampleExposureTab.Rd man/exampleParTab.Rd man/exposure_times.Rd man/ferret_titres.Rd man/fromUnitScale.Rd man/generate_prediction_intervals.Rd man/get_best_pars.Rd man/model_func.Rd man/model_func_group_cpp.Rd man/model_func_groups.Rd man/model_trajectory.Rd man/model_trajectory_cpp.Rd man/mvr_proposal.Rd man/norm_error.Rd man/obs_error.Rd man/obs_likelihood.Rd man/parTab_modification.Rd man/parameter_descriptions.Rd man/posterior_func_group_cpp.Rd man/protect.Rd man/read_ferret_data.Rd man/run_MCMC.Rd man/scaletuning.Rd man/toUnitScale.Rd man/univ_proposal.Rd scripts/analyses/all_analyses.R scripts/analyses/all_analyses_PTchains.R scripts/analyses/convergence_check_funcs.R scripts/analyses/model_comparison_functions.R scripts/analyses/par_table_formatting.R
scripts/analyses/waic_table_complete.csv
scripts/cluster/native_MCMC/cluster_setup.R scripts/cluster/native_MCMC/full_run.R scripts/cluster/native_MCMC/run_submission.R scripts/cluster/parallel_tempering/cluster_setup_pt.R scripts/cluster/parallel_tempering/full_run_paralleltemp.R scripts/cluster/parallel_tempering/run_submission_pt.R scripts/figures/Figure3_trajectories.R scripts/figures/Figure4_densities_and_tables.R scripts/figures/Supp_Figures.R scripts/figures/error_figure_plot.R
scripts/figures/infection_times.csv
scripts/figures/plotting_help.R scripts/readme_code.R scripts/residuals/get_residuals.R
scripts/residuals/residual_file_README.docx
scripts/residuals/residuals.R scripts/simulation/create_sim_data_funcs.R scripts/simulation/sim_data_creation.R scripts/simulation/simulation_recovery_check.R
src/.gitignore
src/RcppExports.cpp
src/helper.cpp
src/model.cpp
src/model.h
src/posterior.cpp
tests/testthat.R tests/testthat/test.R
vignettes/images/param_tab_1.png
vignettes/images/param_tab_2.png
vignettes/images/param_tab_3.png
vignettes/model_fitting.Rmd
vignettes/model_fitting.html
vignettes/paramViewer.Rmd
vignettes/paramViewer.html
jameshay218/antibodyKinetics documentation built on Sept. 1, 2018, 9:52 a.m.