Compute a flag intersect with an omop table.
Usage
addTableIntersectFlag(
x,
tableName,
indexDate = "cohort_start_date",
censorDate = NULL,
window = list(c(0, Inf)),
targetStartDate = startDateColumn(tableName),
targetEndDate = endDateColumn(tableName),
nameStyle = "{table_name}_{window_name}",
name = NULL
)Arguments
- x
Table with individuals in the cdm.
- tableName
Name of the table to intersect with. Options: visit_occurrence, condition_occurrence, drug_exposure, procedure_occurrence, device_exposure, measurement, observation, drug_era, condition_era, specimen, episode.
- indexDate
Variable in x that contains the date to compute the intersection.
- censorDate
whether to censor overlap events at a specific date or a column date of x.
- window
window to consider events in.
- targetStartDate
Column name with start date for comparison.
- targetEndDate
Column name with end date for comparison.
- nameStyle
naming of the added column or columns, should include required parameters.
- name
Name of the new table, if NULL a temporary table is returned.
Examples
# \donttest{
cdm <- mockPatientProfiles()
cdm$cohort1 |>
addTableIntersectFlag(tableName = "visit_occurrence")
#> # Source: table<og_166_1734615551> [?? x 5]
#> # Database: DuckDB v1.1.3 [unknown@Linux 6.8.0-1017-azure:R 4.4.2/:memory:]
#> cohort_definition_id subject_id cohort_start_date cohort_end_date
#> <int> <int> <date> <date>
#> 1 3 8 1937-07-11 1960-04-25
#> 2 1 6 1962-01-08 1988-05-30
#> 3 1 10 1949-07-02 1952-12-18
#> 4 2 2 1952-07-30 1974-07-14
#> 5 3 7 1997-08-08 2002-02-13
#> 6 1 3 1980-10-22 1993-07-03
#> 7 1 1 2002-04-17 2007-07-18
#> 8 3 4 1922-10-13 1923-10-25
#> 9 1 9 2004-11-02 2009-11-03
#> 10 2 5 1999-05-03 1999-06-05
#> # ℹ 1 more variable: visit_occurrence_0_to_inf <dbl>
mockDisconnect(cdm = cdm)
# }