clear_old_reports       Clear out old reports before generating new
                        ones.
compute_trend           Compute the report trend
convert_counts_to_rate
                        Convert case counts to rate
create_epitrax_from_file
                        Create an EpiTrax object from data file
create_filesystem       Create filesystem
create_public_report_combined_month_ytd
                        Create combined monthly and year-to-date public
                        report
create_public_report_month
                        Create a monthly cross-section public report
create_public_report_ytd
                        Create a YTD public report
create_report_annual_counts
                        Create annual counts report
create_report_grouped_stats
                        Create grouped disease statistics report
create_report_monthly_avgs
                        Create monthly averages report
create_report_monthly_counts
                        Create monthly counts report
create_report_monthly_medians
                        Create monthly medians report
create_report_ytd_counts
                        Create year-to-date (YTD) counts report
create_report_ytd_medians
                        Create year-to-date (YTD) medians report
epitrax_ireport_annual_counts
                        Create annual counts internal report from an
                        EpiTrax object
epitrax_ireport_monthly_avgs
                        Create monthly averages internal report from an
                        EpiTrax object
epitrax_ireport_monthly_counts_all_yrs
                        Create monthly counts internal report for all
                        years from an EpiTrax object
epitrax_ireport_ytd_counts_for_month
                        Create year-to-date (YTD) counts internal
                        report for a given month from an EpiTrax object
epitrax_preport_combined_month_ytd
                        Create combined monthly/YTD stats public report
                        from an EpiTrax object
epitrax_preport_month_crosssections
                        Create monthly cross-section reports from an
                        EpiTrax object
epitrax_preport_ytd_rates
                        Create year-to-date (YTD) rates public report
                        from an EpiTrax object
epitrax_report_grouped_stats
                        Create grouped disease statistics report from
                        an EpiTrax object
epitrax_report_monthly_medians
                        Create monthly medians report from an EpiTrax
                        object
epitrax_report_ytd_medians
                        Create year-to-date (YTD) medians report from
                        an EpiTrax object
epitrax_set_config_from_file
                        Set report configuration of EpiTrax object from
                        config file
epitrax_set_config_from_list
                        Set report configuration of EpiTrax object from
                        list
epitrax_set_report_diseases
                        Set report diseases in EpiTrax object
epitrax_write_csvs      Write reports from EpiTrax object to CSV files
epitrax_write_pdf_grouped_stats
                        Write grouped statistics reports from EpiTrax
                        object to PDF files
epitrax_write_pdf_public_reports
                        Create formatted PDF report of monthly
                        cross-section reports
epitrax_write_xlsxs     Write reports from EpiTrax object to Excel
                        files
epitraxr_config         Create epitraxr config object
format_epitrax_data     Format EpiTrax data for report generation
get_month_counts        Get monthly counts for each disease
get_report_config       Read in the report config YAML file
get_report_diseases     Get both internal and public disease lists
get_report_diseases_internal
                        Get the internal disease list
get_report_diseases_public
                        Get the public disease list
get_yrs                 Get unique years from the data
mmwr_week_to_month      Convert MMWR week to calendar month
read_epitrax_data       Read in EpiTrax data
reshape_annual_wide     Reshape data with each year as a separate
                        column
reshape_monthly_wide    Reshape data with each month as a separate
                        column
run_app                 Launch the epitraxr Shiny Application
set_na_0                Set NA values to 0
setup_epitrax           Setup EpiTrax object with configuration and
                        disease lists
setup_filesystem        Setup the report filesystem
standardize_report_diseases
                        Standardize diseases for report
validate_config         Validate config
validate_data           Validate input EpiTrax data
validate_epitrax        Validate EpiTrax object
validate_filesystem     Validate filesystem structure
write_report_csv        Write report CSV files
write_report_pdf        Write general PDF report of disease stats from
                        R Markdown template
write_report_pdf_grouped
                        Write PDF grouped report from R Markdown
                        template
write_report_xlsx       Write report Excel files
