Run duration 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 = "exposureDuration"
)Drug exposure duration Overall
This shows the drug exposure duration of the drug records summarised on ingredient level. The drug exposure duration is estimated through (drug_exposure_end_date - drug_exposure_start_date + 1) for every individual drug exposure record.
datatable(acetaminophen_checks$drugExposureDurationOverall,
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. |
| n_non_negative_days | Number of drug records with a duration of one day or more. |
| n_negative_days | Number of drug records with a negative duration (i.e. drug exposure start date after drug exposure end date). |
| proportion_negative_days | Proportion of drug records with a negative duration |
| minimum_drug_exposure_days | Minimum drug exposure duration |
| q05_drug_exposure_days | 5th quantile of drug exposure duration |
| q10_drug_exposure_days | 10th quantile of drug exposure duration |
| q25_drug_exposure_days | 25th quantile of drug exposure duration |
| median_drug_exposure_days | Median drug exposure duration |
| q75_drug_exposure_days | 75th quantile of drug exposure duration |
| q90_drug_exposure_days | 90th quantile of drug exposure duration |
| q95_drug_exposure_days | 95th quantile of drug exposure duration |
| maximum_drug_exposure_days | Maximum drug exposure duration |
| result_obscured | TRUE if count has been suppressed due to being below the minimum cell count, otherwise FALSE. |
Drug exposure duration by drug concept
This shows the drug exposure duration on the drug concept level. The
drug exposure duration is estimated through (drug_exposure_end_date -
drug_exposure_start_date + 1) for every individual drug exposure record.
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$drugExposureDurationByConcept,
rownames = FALSE
)