Package index • epitraxr

All functions

clear_old_reports(): Clear out old reports before generating new ones.

convert_counts_to_rate(): Convert case counts to rate

create_filesystem(): Create filesystem

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_monthly_avgs(): Create monthly averages report

create_report_monthly_counts(): Create monthly counts report

create_report_ytd_counts(): Create year-to-date (YTD) counts report

epitrax_add_report_diseases(): Add report diseases to EpiTrax object

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_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_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_write_csvs(): Write reports from EpiTrax object to CSV files

epitrax_write_xlsxs(): Write reports from EpiTrax object to Excel files

epitraxr_config(): Create epitraxr config object

format_week_num(): Format input EpiTrax data

get_epitrax(): Create an EpiTrax object from data file

get_internal_disease_list(): Get the internal disease list

get_month_counts(): Calculate monthly counts by disease

get_public_disease_list(): Get the public disease list

get_report_disease_lists(): Get both internal and public disease lists

get_trend(): Get Trend column of report

get_yrs(): Get unique years from a data frame

prep_report_data(): Prepare data for report

read_epitrax_data(): Read in input EpiTrax data

read_report_config(): Read in the report config YAML file

reshape_annual_wide(): Reshape data frame with each year as a separate column

reshape_monthly_wide(): Reshape data frame with each month as a separate column

set_na_0(): Set NA values to 0

setup_epitrax(): Setup EpiTrax object with configuration and disease lists

setup_filesystem(): Setup the report filesystem

validate_config(): Validate a config list

validate_data(): Validate input EpiTrax data

validate_epitrax(): Validate an EpiTrax object

validate_filesystem(): Validate the filesystem structure

write_report_csv(): Write report CSV files

write_report_xlsx(): Write report Excel files