Run the days supply check
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 = "daysSupply"
)Days supply Overall
This shows the days supply of the drug records summarised on ingredient level.
datatable(acetaminophen_checks$drugDaysSupply,
rownames = FALSE
)| Column | Description |
|---|---|
| ingredient_concept_id | Concept ID of ingredient. |
| ingredient | Name of drug ingredient. |
| 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. |
| minimum_drug_exposure_days_supply | Minimum drug exposure days supply |
| q05_drug_exposure_days_supply_supply | 5th quantile of drug exposure days supply |
| q10_drug_exposure_days_supply | 10th quantile of drug exposure days supply |
| q25_drug_exposure_days_supply | 25th quantile of drug exposure days supply |
| median_drug_exposure_days_supply | Median drug exposure days supply |
| q75_drug_exposure_days_supply | 75th quantile of drug exposure days supply |
| q90_drug_exposure_days_supply | 90th quantile of drug exposure days supply |
| q95_drug_exposure_days_supply | 95th quantile of drug exposure days supply |
| maximum_drug_exposure_days_supply | Maximum drug exposure days supply |
| n_different_days_supply_and_drug_dates | Number of records where days supply differs to drug exposure days supply (estimated through drug_exposure_end_date - drug_exposure_start_date + 1). Ideally these two values should overlap because often the drug_exposure_end_date is derived from the days_supply field. However, the days_supply field is not a required field where as drug_exposure_end_date is a required field. If days_supply is missing then it is automatically captured as a difference. |
| n_days_supply_match_drug_dates | Number of records where days supply is identical to drug exposure days supply (estimated through drug_exposure_end_date - drug_exposure_start_date + 1). Ideally these two values should overlap because often the drug_exposure_end_date is derived from the days_supply field. However, the days_supply field is not a required field where as drug_exposure_end_date is a required field. |
| n_missing_days_supply | Number of records with missing days supply. This field together with n_different_days_supply_and_drug_dates and n_days_supply_match_drug_dates shall be identical to n_records. |
| proportion_different_days_supply_and_drug_dates | Proportion of records where days supply differs to drug exposure days supply (estimated through drug_exposure_end_date - drug_exposure_start_date + 1). |
| proportion_days_supply_match_drug_dates | Proportion of records where days supply is idential to drug exposure days supply (estimated through drug_exposure_end_date - drug_exposure_start_date + 1). |
| proportion_missing_days_supply | |
| result_obscured | TRUE if count has been suppressed due to being below the minimum cell count, otherwise FALSE. |
Days supply by drug concept
This shows the days supply on the 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$drugDaysSupplyByConcept,
rownames = FALSE
)