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Quantity

Source: vignettes/Quantity.Rmd
Quantity.Rmd

Run the quantity 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 = "quantity"
)

Quantity Overall

This shows the quantity of the drug records summarised on ingredient level. The quantity is not a required field, but it is a most useful field. How the quantity is filled depends on the drug strength pattern. For quantified drugs (where the denominator_value is not missing), the quantity identifies the number of packages / items (in case of multiple dose packages). However, in case of non-quantified drugs (where the denominator_value is missing), the quantity identifies the volume / total number of actuations or others dispensed / prescribed.

datatable(acetaminophen_checks$drugQuantity,
  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_quantity Minimum drug exposure quantity.
q05_drug_exposure_quantity 5th quantile for drug exposure quantity.
q10_drug_exposure_quantity 10th quantile for drug exposure quantity.
q25_drug_exposure_quantity 25th quantile for drug exposure quantity.
median_drug_exposure_quantity Median drug exposure quantity.
q75_drug_exposure_quantity 75th quantile for drug exposure quantity.
q90_drug_exposure_quantity 90th quantile for drug exposure quantity.
q95_drug_exposure_quantity 95th quantile for drug exposure quantity.
maximum_drug_exposure_quantity Maximum drug exposure quantity.
result_obscured TRUE if count has been suppressed due to being below the minimum cell count, otherwise FALSE.

Quantity by concept

This shows the quantity of the drug records on the drug concept level. The quantity is not a required field, but it is a most useful field. How the quantity is filled depends on the drug strength pattern. For quantified drugs (where the denominator_value is not missing), the quantity identifies the number of packages / items (in case of multiple dose packages). However, in case of non-quantified drugs (where the denominator_value is missing), the quantity identifies the volume / total number of actuations or others dispensed / prescribed. 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$drugQuantityByConcept,
  rownames = FALSE
)