Verbatim End Date

Run the Verbatim End Date check

The verbatim end date is the drug exposure end date in the source data. Thus, we check whether the verbatim end date equals the drug_exposure_end_date in OMOP (which is a required field).

library(DrugExposureDiagnostics)
library(dplyr)
#> Error in get(paste0(generic, ".", class), envir = get_method_env()) : 
#>   object 'type_sum.accel' not found
library(DT)

# acetaminophen concept id is 1125315
acetaminophen <- 1125315
cdm <- mockDrugExposure()
acetaminophen_checks <- executeChecks(
  cdm = cdm,
  ingredients = acetaminophen,
  checks = "verbatimEndDate"
)

Drug verbatim end date Overall

This shows the days drug verbatim end date checks summarised on ingredient level.

datatable(acetaminophen_checks$drugVerbatimEndDate,
  rownames = FALSE
)

Column	Description
ingredient_concept_id	Concept ID of ingredient.
ingredient	Name of drug ingredient.
minimum_verbatim_end_date	Minimum verbatim end date.
maximum_verbatim_end_date	Maximum verbatim end date.
n_records	Number of records for ingredient concept. If n_records is the same as n_sample this means that there are more records but the number was cut at the pre-specified sample number for efficiency reasons.
n_sample	The pre-specified maximum sample. If n_records is smaller than the sample it means that sampling was ignored because the total number of records was already too small.
n_person	Number of individuals.
n_missing_verbatim_end_date	Number of records missing verbatim end date.
n_not_missing_verbatim_end_date	Number of records not missing verbatim end date.
n_verbatim_end_date_equal_to_drug_exposure_end_date	Number of records where verbatim end date is the same as drug exposure end date.
n_verbatim_end_date_and_drug_exposure_end_date_differ	Number of records where verbatim end date and drug exposure end date differ.
result_obscured	TRUE if count has been suppressed due to being below the minimum cell count, otherwise FALSE.

Drug verbatim end date by concept

This shows the days drug verbatim end date checks on drug concept level. The tables are identical to the overall just including two more columns at the beginning.

Column	Description
drug_concept_id	ID of the drug concept.
drug	Name of the drug concept.

datatable(acetaminophen_checks$drugVerbatimEndDateByConcept,
  rownames = FALSE
)