Files in dchodge/hero-study
HERO study statistical analysis
.gitattributes
.gitignore
.here
DESCRIPTION
NAMESPACE
R/.DS_Store
R/.RData
R/data_clean.R
R/data_model.R
R/helpers.R
R/m1_prev.R
R/m2_abkin.R
R/m3_hetsen.R
R/supp.R
README.md
appendix/HERO Completed STROBE Checklist[60].doc
appendix/HERO_study_supplementary_FINAL.docx
appendix/HERO_study_supplementary_FINAL_V2.1.docx
data/datafit.RData
data/fit_mcmc_asymp.RData
data/fit_mcmc_change.RData
data/fit_mcmc_prev.RData
data/fit_mcmc_sens.RData
data/fit_mcmc_spec.RData
data/fit_mcmc_start.RData
data/fit_mcmc_time.RData
data/sensspec.RData
data/sero_clean.RData
include/asymp.rds
include/asymp.stan
include/asymp/c19zones_adjusted_1.csv
include/asymp/c19zones_adjusted_2.csv
include/asymp/c19zones_adjusted_3.csv
include/asymp/c19zones_adjusted_4.csv
include/asymp/c19zones_adjusted_diag_1.csv
include/asymp/c19zones_adjusted_diag_2.csv
include/asymp/c19zones_adjusted_diag_3.csv
include/asymp/c19zones_adjusted_diag_4.csv
include/asymp/c19zones_unadjusted_1.csv
include/asymp/c19zones_unadjusted_2.csv
include/asymp/c19zones_unadjusted_3.csv
include/asymp/c19zones_unadjusted_4.csv
include/asymp/c19zones_unadjusted_diag_1.csv
include/asymp/c19zones_unadjusted_diag_2.csv
include/asymp/c19zones_unadjusted_diag_3.csv
include/asymp/c19zones_unadjusted_diag_4.csv
include/asymp/job_grouped_adjusted_1.csv
include/asymp/job_grouped_adjusted_2.csv
include/asymp/job_grouped_adjusted_3.csv
include/asymp/job_grouped_adjusted_4.csv
include/asymp/job_grouped_adjusted_diag_1.csv
include/asymp/job_grouped_adjusted_diag_2.csv
include/asymp/job_grouped_adjusted_diag_3.csv
include/asymp/job_grouped_adjusted_diag_4.csv
include/asymp/job_grouped_unadjusted_1.csv
include/asymp/job_grouped_unadjusted_2.csv
include/asymp/job_grouped_unadjusted_3.csv
include/asymp/job_grouped_unadjusted_4.csv
include/asymp/job_grouped_unadjusted_diag_1.csv
include/asymp/job_grouped_unadjusted_diag_2.csv
include/asymp/job_grouped_unadjusted_diag_3.csv
include/asymp/job_grouped_unadjusted_diag_4.csv
include/asymp/loc_coded_adjusted_1.csv
include/asymp/loc_coded_adjusted_2.csv
include/asymp/loc_coded_adjusted_3.csv
include/asymp/loc_coded_adjusted_4.csv
include/asymp/loc_coded_adjusted_diag_1.csv
include/asymp/loc_coded_adjusted_diag_2.csv
include/asymp/loc_coded_adjusted_diag_3.csv
include/asymp/loc_coded_adjusted_diag_4.csv
include/asymp/loc_coded_unadjusted_1.csv
include/asymp/loc_coded_unadjusted_2.csv
include/asymp/loc_coded_unadjusted_3.csv
include/asymp/loc_coded_unadjusted_4.csv
include/asymp/loc_coded_unadjusted_diag_1.csv
include/asymp/loc_coded_unadjusted_diag_2.csv
include/asymp/loc_coded_unadjusted_diag_3.csv
include/asymp/loc_coded_unadjusted_diag_4.csv
include/change.stan
include/change/IgA_N_Serum_1.csv
include/change/IgA_N_Serum_2.csv
include/change/IgA_N_Serum_3.csv
include/change/IgA_N_Serum_4.csv
include/change/IgA_N_Serum_diag_1.csv
include/change/IgA_N_Serum_diag_2.csv
include/change/IgA_N_Serum_diag_3.csv
include/change/IgA_N_Serum_diag_4.csv
include/change/IgA_S_Serum_1.csv
include/change/IgA_S_Serum_2.csv
include/change/IgA_S_Serum_3.csv
include/change/IgA_S_Serum_4.csv
include/change/IgA_S_Serum_diag_1.csv
include/change/IgA_S_Serum_diag_2.csv
include/change/IgA_S_Serum_diag_3.csv
include/change/IgA_S_Serum_diag_4.csv
include/change/IgG_N_1.csv
include/change/IgG_N_2.csv
include/change/IgG_N_3.csv
include/change/IgG_N_4.csv
include/change/IgG_N_diag_1.csv
include/change/IgG_N_diag_2.csv
include/change/IgG_N_diag_3.csv
include/change/IgG_N_diag_4.csv
include/change/IgG_S_1.csv
include/change/IgG_S_2.csv
include/change/IgG_S_3.csv
include/change/IgG_S_4.csv
include/change/IgG_S_diag_1.csv
include/change/IgG_S_diag_2.csv
include/change/IgG_S_diag_3.csv
include/change/IgG_S_diag_4.csv
include/change/change
include/change/change-202103091359-1-900a2f.csv
include/change/change-202103091359-2-900a2f.csv
include/change/change-202103091359-3-900a2f.csv
include/change/change-202103091359-4-900a2f.csv
include/control
include/control.stan
include/multicontrol
include/multicontrol.stan
include/profile.csv
include/sero_prev.rds
include/sero_prev.stan
include/sero_prev/c19zones_adjusted_1.csv
include/sero_prev/c19zones_adjusted_2.csv
include/sero_prev/c19zones_adjusted_3.csv
include/sero_prev/c19zones_adjusted_4.csv
include/sero_prev/c19zones_adjusted_diag_1.csv
include/sero_prev/c19zones_adjusted_diag_2.csv
include/sero_prev/c19zones_adjusted_diag_3.csv
include/sero_prev/c19zones_adjusted_diag_4.csv
include/sero_prev/c19zones_unadjusted_1.csv
include/sero_prev/c19zones_unadjusted_2.csv
include/sero_prev/c19zones_unadjusted_3.csv
include/sero_prev/c19zones_unadjusted_4.csv
include/sero_prev/c19zones_unadjusted_diag_1.csv
include/sero_prev/c19zones_unadjusted_diag_2.csv
include/sero_prev/c19zones_unadjusted_diag_3.csv
include/sero_prev/c19zones_unadjusted_diag_4.csv
include/sero_prev/job_grouped_adjusted_1.csv
include/sero_prev/job_grouped_adjusted_2.csv
include/sero_prev/job_grouped_adjusted_3.csv
include/sero_prev/job_grouped_adjusted_4.csv
include/sero_prev/job_grouped_adjusted_diag_1.csv
include/sero_prev/job_grouped_adjusted_diag_2.csv
include/sero_prev/job_grouped_adjusted_diag_3.csv
include/sero_prev/job_grouped_adjusted_diag_4.csv
include/sero_prev/job_grouped_unadjusted_1.csv
include/sero_prev/job_grouped_unadjusted_2.csv
include/sero_prev/job_grouped_unadjusted_3.csv
include/sero_prev/job_grouped_unadjusted_4.csv
include/sero_prev/job_grouped_unadjusted_diag_1.csv
include/sero_prev/job_grouped_unadjusted_diag_2.csv
include/sero_prev/job_grouped_unadjusted_diag_3.csv
include/sero_prev/job_grouped_unadjusted_diag_4.csv
include/sero_prev/loc_coded_adjusted_1.csv
include/sero_prev/loc_coded_adjusted_2.csv
include/sero_prev/loc_coded_adjusted_3.csv
include/sero_prev/loc_coded_adjusted_4.csv
include/sero_prev/loc_coded_adjusted_diag_1.csv
include/sero_prev/loc_coded_adjusted_diag_2.csv
include/sero_prev/loc_coded_adjusted_diag_3.csv
include/sero_prev/loc_coded_adjusted_diag_4.csv
include/sero_prev/loc_coded_unadjusted_1.csv
include/sero_prev/loc_coded_unadjusted_2.csv
include/sero_prev/loc_coded_unadjusted_3.csv
include/sero_prev/loc_coded_unadjusted_4.csv
include/sero_prev/loc_coded_unadjusted_diag_1.csv
include/sero_prev/loc_coded_unadjusted_diag_2.csv
include/sero_prev/loc_coded_unadjusted_diag_3.csv
include/sero_prev/loc_coded_unadjusted_diag_4.csv
include/start.stan
include/start/IgG_S/start-202103091711-1-0c22aa.csv
include/start/IgG_S/start-202103091711-2-0c22aa.csv
include/start/IgG_S/start-202103091711-3-0c22aa.csv
include/start/IgG_S/start-202103091711-4-0c22aa.csv
include/start/start
include/time.stan
include/time/IgA_N_Serum_1.csv
include/time/IgA_N_Serum_2.csv
include/time/IgA_N_Serum_3.csv
include/time/IgA_N_Serum_4.csv
include/time/IgA_N_Serum_diag_1.csv
include/time/IgA_N_Serum_diag_2.csv
include/time/IgA_N_Serum_diag_3.csv
include/time/IgA_N_Serum_diag_4.csv
inst/extdata/HERO_Validation_OD_21Dec2020_N.csv
inst/extdata/HERO_Validation_OD_21Dec2020_S.csv
inst/extdata/HERO_data_clean_14Oct2020.csv
inst/extdata/HERO_data_clean_21Dec2020.csv
inst/extdata/Sheffield_ELISA_validation_data_N.csv
inst/extdata/Sheffield_ELISA_validation_data_S.csv
inst/requested/data_full.csv
man/get_datafit_metric.Rd
outputs/.DS_Store
outputs/figs/.DS_Store
outputs/figs/Fig1.pdf
outputs/figs/FigS1.pdf
outputs/figs/fig2.pdf
outputs/figs/fig3_sens.pdf
outputs/figs/fig3_spec.pdf
outputs/figs/old/het_sens.pdf
outputs/figs/old/het_sens_age.pdf
outputs/figs/old/het_sens_ethnicitiy.pdf
outputs/figs/old/het_sens_gender.pdf
outputs/figs/old/het_spec_age.pdf
outputs/figs/old/het_spec_ethnicitiy.pdf
outputs/figs/old/het_spec_gender.pdf
outputs/figs/roc.pdf
outputs/figs/roc_age.pdf
outputs/figs/supp_corr.pdf
outputs/figs/supp_sens_spec_od.pdf
outputs/figs/supp_time_pso.pdf
outputs/figs/supp_timings_A.pdf
outputs/figs/supp_timings_B.pdf
vignettes/study_other.Rmd
vignettes/study_run_figs.Rmd
