Files in blind-contours/COVIDxrisk
What the Package Does (One Line, Title Case)
.Rbuildignore
.gitignore
COVIDxrisk.Rproj
DESCRIPTION
Figures/interaction_imp_COVID-19 Cases at 1 Year.png
Figures/interaction_imp_COVID-19 Cases at Day 100.png
Figures/interaction_imp_COVID-19 Deaths at 1 Year.png
Figures/interaction_imp_COVID-19 Deaths at Day 100.png
Figures/interaction_imp_Total COVID-19 Cases To-Date.png
Figures/interaction_imp_Total COVID-19 Deaths To-Date.png
Figures/jointimp_COVID-19 Cases at 1 Year.png
Figures/jointimp_COVID-19 Cases at Day 100.png
Figures/jointimp_COVID-19 Deaths at 1 Year.png
Figures/jointimp_COVID-19 Deaths at Day 100.png
Figures/jointimp_Total COVID-19 Cases To-Date.png
Figures/jointimp_Total COVID-19 Deaths To-Date.png
Figures/quantile_imp_COVID-19 Cases at 1 Year.png
Figures/quantile_imp_COVID-19 Cases at Day 100.png
Figures/quantile_imp_COVID-19 Deaths at 1 Year.png
Figures/quantile_imp_COVID-19 Deaths at Day 100.png
Figures/quantile_imp_Total COVID-19 Cases To-Date.png
Figures/quantile_imp_Total COVID-19 Deaths To-Date.png
Figures/subgroup_imp_COVID-19 Cases at 1 Year.png
Figures/subgroup_imp_COVID-19 Cases at Day 100.png
Figures/subgroup_imp_COVID-19 Deaths at 1 Year.png
Figures/subgroup_imp_COVID-19 Deaths at Day 100.png
Figures/subgroup_imp_Total COVID-19 Cases To-Date.png
Figures/subgroup_imp_Total COVID-19 Deaths To-Date.png
Figures/subgroup_quantile_imp_COVID-19 Cases at 1 Year.png
Figures/subgroup_quantile_imp_COVID-19 Cases at Day 100.png
Figures/subgroup_quantile_imp_COVID-19 Deaths at 1 Year.png
Figures/subgroup_quantile_imp_COVID-19 Deaths at Day 100.png
Figures/subgroup_quantile_imp_Total COVID-19 Cases To-Date.png
Figures/subgroup_quantile_imp_Total COVID-19 Deaths To-Date.png
Figures/varimp_COVID-19 Cases at 1 Year.png
Figures/varimp_COVID-19 Cases at Day 100.png
Figures/varimp_COVID-19 Deaths at 1 Year.png
Figures/varimp_COVID-19 Deaths at Day 100.png
Figures/varimp_Total COVID-19 Cases To-Date.png
Figures/varimp_Total COVID-19 Deaths To-Date.png
Figures/varimp_VTE_deaths_1year.png
Figures/varimp_VTE_deaths_day100.png
Figures/varimp_VTE_deaths_total.png
Figures/varimp_cases_1year.png
Figures/varimp_cases_day100.png
Figures/varimp_cases_total.png
Figures/varimp_deaths_1year.png
Figures/varimp_deaths_day100.png
Figures/varimp_deaths_total.png
NAMESPACE
R/02_exploratory_analysis.R
R/03_fit_day100_cases_model.R
R/03_fit_day100_deaths_model.R
R/03_fit_total_cases_model.R
R/03_fit_total_deaths_model.R
R/03_fit_year1_cases_model.R
R/03_fit_year1_deaths_model.R
R/Manuscript_Plots.R
R/Manuscript_Tables.R
R/preprocessing_combined.R
R/util.R
R/utils_create_sl.R
R/utils_plotting.R
R/utils_sl_varimp.R
data/Casesat1year_ind_var_imp_quantile.RDS
data/Casesat1year_ind_var_imp_risk.RDS
data/Casesat1year_intxn_imp_quantile.RDS
data/Casesat1year_intxn_imp_risk.RDS
data/Casesat1year_subgroup_imp_quant.RDS
data/Casesat1year_subgroup_imp_risk.RDS
data/CountyRelativeDay100Cases_ind_var_imp_quantile.RDS
data/CountyRelativeDay100Cases_ind_var_imp_risk.RDS
data/CountyRelativeDay100Cases_intxn_imp_quantile.RDS
data/CountyRelativeDay100Cases_intxn_imp_risk.RDS
data/CountyRelativeDay100Cases_subgroup_imp_quant.RDS
data/CountyRelativeDay100Cases_subgroup_imp_risk.RDS
data/CountyRelativeDay100Deaths_ind_var_imp_quantile.RDS
data/CountyRelativeDay100Deaths_ind_var_imp_risk.RDS
data/CountyRelativeDay100Deaths_intxn_imp_quantile.RDS
data/CountyRelativeDay100Deaths_intxn_imp_risk.RDS
data/CountyRelativeDay100Deaths_subgroup_imp_quant.RDS
data/CountyRelativeDay100Deaths_subgroup_imp_risk.RDS
data/Deathsat1year_ind_var_imp_quantile.RDS
data/Deathsat1year_ind_var_imp_risk.RDS
data/Deathsat1year_intxn_imp_quantile.RDS
data/Deathsat1year_intxn_imp_risk.RDS
data/Deathsat1year_subgroup_imp_quant.RDS
data/Deathsat1year_subgroup_imp_risk.RDS
data/TotalCasesUpToDate_ind_var_imp_quantile.RDS
data/TotalCasesUpToDate_ind_var_imp_risk.RDS
data/TotalCasesUpToDate_intxn_imp_quantile.RDS
data/TotalCasesUpToDate_intxn_imp_risk.RDS
data/TotalCasesUpToDate_subgroup_imp_quant.RDS
data/TotalCasesUpToDate_subgroup_imp_risk.RDS
data/TotalDeathsUpToDate_ind_var_imp_quantile.RDS
data/TotalDeathsUpToDate_ind_var_imp_risk.RDS
data/TotalDeathsUpToDate_intxn_imp_quantile.RDS
data/TotalDeathsUpToDate_intxn_imp_risk.RDS
data/TotalDeathsUpToDate_subgroup_imp_quant.RDS
data/TotalDeathsUpToDate_subgroup_imp_risk.RDS
data/processed/CountyRelativeDay100Cases_PopScale_CI_data.csv
data/processed/CountyRelativeDay100Cases_PopScale_full_data.RDS
data/processed/CountyRelativeDay100Deaths_PopScale_CI_data.csv
data/processed/CountyRelativeDay100Deaths_PopScale_full_data.RDS
data/processed/Data_Dictionary.xlsx
data/processed/Deathsat1year_PopScale_CI_data.csv
data/processed/Deathsat1year_PopScale_full_data.RDS
data/processed/TotalCasesUpToDate_PopScale_CI_data.csv
data/processed/TotalCasesUpToDate_PopScale_full_data.RDS
data/processed/TotalDeathsUpToDate_PopScale_CI_data.csv
data/processed/TotalDeathsUpToDate_PopScale_full_data.RDS
data/processed/chronic_conditions_prev_by_age_2017.xlsx
data/processed/cleaned_covid_data_final.csv
data/processed/cleaned_covid_data_final_Mar_31_22.csv
data/processed/column_dendrogram_labeled.csv
data/processed/column_dendrogram_labeling.csv
data/processed/counties_airports.csv
data/processed/fips_state_crosswalk.xlsx
data/processed/new_variables_added.csv
data/processed/nir_covid_county_population_usafacts.csv
data/processed/racial_seg_census_api.csv
data/processed/vars_removed_na_thresh_combined.csv
data/processed/~$Data_Dictionary.xlsx
data/raw/2020 County Health Rankings Data.xlsx
data/raw/Arsenic_codebook_data.xlsx
data/raw/COPD.csv
data/raw/CountyGDP.csv
data/raw/EPest_county_estimates_2013_2017_v2.txt
data/raw/Excessive_Heat.csv
data/raw/LUR_pollution_data.csv
data/raw/PCE_levels.csv
data/raw/SDWIS_As_Violations_County_2006-2017_FINAL.csv
data/raw/SVI2018_US_COUNTY.csv
data/raw/TCE_levels.csv
data/raw/USCommuting2015.xlsx
data/raw/acs_2018_Jun.csv
data/raw/air_quality.csv
data/raw/all_heartdisease_deathrate.csv
data/raw/all_stroke_deathrate.csv
data/raw/analytic_data2020.csv
data/raw/arsenic_levels.csv
data/raw/atrazine_levels.csv
data/raw/countypres_2000-2020.csv
data/raw/dehp_levels.csv
data/raw/housing_built_year.csv
data/raw/incarceration_trends.xlsx
data/raw/lbs_employment_types.xlsx
data/raw/lead-risk-score.csv
data/raw/mask-use-by-county.csv
data/raw/nitrate_levels.csv
data/raw/num_hospitals.csv
data/raw/percent_park_access.csv
data/raw/structural_racism_all_forsharing2021.xls
data/raw/summarized_contaminants.csv
data/raw/summary_report_US.txt
data/raw/temp_lm_models_by_county.xlsx
data/raw/tthm_levels.csv
data/raw/urban_rural_status.csv
data/raw/uv-county.xlsx
logs/total_cases_modeling.Rout
slurm/sbatch_1year_cases.sh
slurm/sbatch_1year_deaths.sh
slurm/sbatch_day100_cases.sh
slurm/sbatch_day100_deaths.sh
slurm/sbatch_total_cases.sh
slurm/sbatch_total_deaths.sh
