week_report: Wrapper for IDSR data processing and reporting functions in...

In R4IDSR/epichecks: Report templates and helper functions for WHO surveillance data

Description

Wrapper for IDSR data processing and reporting functions in epichecks. Will produce country feedback excel sheets (missings and thresholds), country PDF letters, a weekly excel summary report and will aggregate country data in to one large dataframe.

Usage

week_report(
  current_year = 2020,
  current_week = 1,
  week_start = "Monday",
  input_path = here::here("Data Files"),
  output_path = here::here("Data Files", "Output")
)

Arguments

current_year	The year of interest as numeric (e.g. the default is 2020)
current_week	The week of interest as numeric. The default is 1. Values less than 10 are padded with leading zeros, e.g. 1 becomes 01. (You could also enter 01 and it would be fine)
week_start	First day of the week as accepted for aweek. The default for this is "Monday" to confirm with ISO standards.
input_path	File path where IDSR processed data is. The default is set to your current directory, within the "Data Files" folder which should contain a subfolder called "!Imported". Within "!Imported", there should be a folder for each year - which has to fit to the current_year parameter above. Within that a folder for each week, fitting to the current_week param. All excel files within this folder will be read in.
output_path	File path where you would like outputs to be saved to. Within this folder a new folder will be created for the current year, and within that the current week. This defaults to your current directory, with subfolders of Data Files > Output > 2020 > 01. The year folder needs to exist already - only the current week folder will be created. The file itself will labelled with the current week, e.g. "SummaryReport_2020-w01.xlsx"

See Also

clean_idsr for preparing IDSR data for use with threshold_checker, missing_checker for missing flags and threshold_checker for threshold flags. In addition, see country_feedback, country_letters and weekly_summary for producing feedback to countries; as well as aggregator to compile countries in to one dataset.

R4IDSR/epichecks documentation built on Sept. 18, 2021, 2:03 p.m.