addIndication {DrugUtilisation}

Add a variable indicating individuals indications

Description

Add a variable to a drug cohort indicating their presence in an indication cohort in a specified time window. If an individual is not in one of the indication cohorts, they will be considered to have an unknown indication if they are present in one of the specified OMOP CDM clinical tables. If they are neither in an indication cohort or a clinical table they will be considered as having no observed indication.

Usage

addIndication(
  cohort,
  indicationCohortName,
  indicationCohortId = NULL,
  indicationWindow = list(c(0, 0)),
  unknownIndicationTable = NULL,
  indexDate = "cohort_start_date",
  censorDate = NULL,
  name = NULL
)

Arguments

cohort

A cohort table in the cdm.

indicationCohortName

Name of indication cohort table

indicationCohortId

target cohort Id to add indication

indicationWindow

time window of interests

unknownIndicationTable

Tables to search unknown indications

indexDate

Date respect to indication will be calculated.

censorDate

After that day no indication will be considered.

name

name of permanant table

Value

The original table with a variable added that summarises the individual´s indications.

Examples

library(DrugUtilisation)
library(CDMConnector)
library(dplyr)

cdm <- mockDrugUtilisation()

indications <- list("headache" = 378253, "asthma" = 317009)
cdm <- generateConceptCohortSet(
  cdm = cdm, conceptSet = indications, name = "indication_cohorts"
)

cdm <- generateIngredientCohortSet(
  cdm = cdm, name = "drug_cohort",
  ingredient = "acetaminophen"
)

cdm$drug_cohort |>
  addIndication("indication_cohorts", indicationWindow = list(c(0, 0))) |>
  glimpse()