Create monthly medians report from an EpiTrax object

epitrax_report_monthly_medians generates a report of monthly medians for all years in the EpiTrax object data, with the option to exclude the current report year. It can be run for either internal or public reports.

Usage

epitrax_report_monthly_medians(
  epitrax,
  is.public = FALSE,
  exclude.report.year = FALSE
)

Arguments

epitrax

Object of class epitrax.

is.public

Logical indicating whether to generate a public report using the public disease list. If FALSE (default), generates an internal report using the internal disease list.

exclude.report.year

Logical indicating whether to exclude the current report year from the report. Defaults to FALSE.

Value

Updated EpiTrax object with monthly medians report added to either the internal_reports or public_reports field, depending on the is.public parameter.

Examples

data_file <- system.file("sample_data/sample_epitrax_data.csv",
                         package = "epitraxr")
config_file <- system.file("tinytest/test_files/configs/good_config.yaml",
                           package = "epitraxr")
disease_lists <- list(
  internal = "use_defaults",
  public = "use_defaults"
)

epitrax <- setup_epitrax(
  filepath = data_file,
  config_file = config_file,
  disease_list_files = disease_lists
) |>
 epitrax_report_monthly_medians()
#> Warning: You have not provided a disease list for internal reports.
#>  - The program will default to using only the diseases found in the input dataset.
#>  - If you would like to use a different list, please include a file with a column named
#> 
#> 	'EpiTrax_name'
#> Warning: You have not provided a disease list for public reports.
#>  - The program will default to using only the diseases found in the input dataset.
#>  - If you would like to use a different list, please include a file with columns named
#> 
#> 	'EpiTrax_name' and 'Public_name'

names(epitrax$internal_reports)
#> [1] "monthly_medians_2019-2024"