CohortConstructor (version 0.5.0)

stratifyCohorts: Create a new cohort table from stratifying an existing one

Description

stratifyCohorts() creates new cohorts, splitting an existing cohort based on specified columns on which to stratify on.

Usage

stratifyCohorts(
  cohort,
  strata,
  cohortId = NULL,
  removeStrata = TRUE,
  name = tableName(cohort),
  .softValidation = TRUE
)

Value

Cohort table stratified.

Arguments

cohort

A cohort table in a cdm reference.

strata

A strata list that point to columns in cohort table.

cohortId

Vector identifying which cohorts to include (cohort_definition_id or cohort_name). Cohorts not included will be removed from the cohort set.

removeStrata

Whether to remove strata columns from final cohort table.

name

Name of the new cohort table created in the cdm object.

.softValidation

Whether to perform a soft validation of consistency. If set to FALSE four additional checks will be performed: 1) a check that cohort end date is not before cohort start date, 2) a check that there are no missing values in required columns, 3) a check that cohort duration is all within observation period, and 4) that there are no overlapping cohort entries

Examples

# \donttest{
library(CohortConstructor)
library(PatientProfiles)

cdm <- mockCohortConstructor()

cdm$my_cohort <- cdm$cohort1 |>
  addAge(ageGroup = list("child" = c(0, 17), "adult" = c(18, Inf))) |>
  addSex(name = "my_cohort") |>
  stratifyCohorts(
    strata = list("sex", c("sex", "age_group")), name = "my_cohort"
  )

cdm$my_cohort

settings(cdm$my_cohort)

attrition(cdm$my_cohort)
# }