Generate example subset of the OMOP CDM for estimating incidence and prevalence

Usage

mockIncidencePrevalenceRef(
  personTable = NULL,
  observationPeriodTable = NULL,
  targetCohortTable = NULL,
  outcomeTable = NULL,
  sampleSize = 1,
  outPre = 1,
  seed = 444,
  ageBeta = NULL,
  genderBeta = NULL,
  intercept = NULL,
  earliestDateOfBirth = NULL,
  latestDateOfBirth = NULL,
  earliestObservationStartDate = as.Date("1900-01-01"),
  latestObservationStartDate = as.Date("2010-01-01"),
  minDaysToObservationEnd = 1,
  maxDaysToObservationEnd = 4380,
  minOutcomeDays = 1,
  maxOutcomeDays = 10,
  maxOutcomes = 1
)

Arguments

personTable: A tibble in the format of the person table.
observationPeriodTable: A tibble in the format of the observation period table.
targetCohortTable: A tibble in the format of a cohort table which can be used for stratification
outcomeTable: A tibble in the format of a cohort table which can be used for outcomes
sampleSize: The number of unique patients.
outPre: The fraction of patients with an event.
seed: The seed for simulating the data set. Use the same seed to get same data set.
ageBeta: The beta for the standardised age in a logistic regression outcome model.
genderBeta: The beta for the gender flag in a logistic regression outcome model.
intercept: The beta for the intercept in a logistic regression outcome model.
earliestDateOfBirth: The earliest date of birth of a patient in person table.
latestDateOfBirth: The latest date of birth of a patient in person table.
earliestObservationStartDate: The earliest observation start date for patient format.
latestObservationStartDate: The latest observation start date for patient format.
minDaysToObservationEnd: The minimum number of days of the observational integer.
maxDaysToObservationEnd: The maximum number of days of the observation period integer.
minOutcomeDays: The minimum number of days of the outcome period default set to 1.
maxOutcomeDays: The maximum number of days of the outcome period default set to 10.
maxOutcomes: The maximum possible number of outcomes per person can have default set to 1.

Value

A cdm reference to a duckdb database with mock data.

Examples

# \donttest{
cdm <- mockIncidencePrevalenceRef(sampleSize = 100)
cdm
#> 
#> ── # OMOP CDM reference (duckdb) of mock ───────────────────────────────────────
#> • omop tables: person, observation_period
#> • cohort tables: target, outcome
#> • achilles tables: -
#> • other tables: -
# }