Uses several IDDO-SDTM domains to create a single dataset with various demographic, microbiology, physiology, clinical and vital sign information summarised.
Usage
create_clinical_table(
dm_domain,
mb_domain = NULL,
mp_domain = NULL,
sa_domain = NULL,
vs_domain = NULL,
values_funct = first
)Arguments
- dm_domain
A demographics/DM domain data frame.
- mb_domain
A microbiology/MB domain data frame.
- mp_domain
A morphology and physiology/MP domain data frame.
- sa_domain
A clinical and adverse events/SA domain data frame.
- vs_domain
A vital signs/VS domain data frame.
- values_funct
Function. The function which will determine which data row is used in the output, in the event there are multiple rows for the same subject with the same time points (as listed in timing_variables). Default is first(), i.e. if there is two rows from the same day and time, the first record will be taken, the second will be dropped. Choice of timing_variables will impact the number of rows affected.
Examples
create_clinical_table(dm_domain = DM_RPTESTB,
sa_domain = SA_RPTESTB,
vs_domain = VS_RPTESTB)
#> [1] "Number of rows where values_fn has been used to pick record in the VS domain: 0"
#> Joining with `by = join_by(STUDYID, USUBJID)`
#> [1] "Number of rows where values_fn has been used to pick record in the SA domain: 0"
#> Joining with `by = join_by(STUDYID, USUBJID, TIME, TIME_SOURCE)`
#> # A tibble: 10 × 10
#> STUDYID USUBJID TIME TIME_SOURCE `BMI_kg/m2` HEIGHT_cm TEMP_C WEIGHT_kg
#> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
#> 1 RPTESTB RPTESTB_001 1 DY 21.5 167 36.2 60
#> 2 RPTESTB RPTESTB_001 3 DY NA NA 37.4 NA
#> 3 RPTESTB RPTESTB_001 42 DY NA NA 37.5 NA
#> 4 RPTESTB RPTESTB_002 1 DY 20.5 143 37.5 42
#> 5 RPTESTB RPTESTB_002 4 DY NA NA 37.2 NA
#> 6 RPTESTB RPTESTB_002 40 DY NA NA 37.9 NA
#> 7 RPTESTB RPTESTB_003 2 DY 0.01 84 37.2 9.6
#> 8 RPTESTB RPTESTB_003 5 DY NA NA 37.1 NA
#> 9 RPTESTB RPTESTB_003 3 VISITNUM NA NA 37.7 NA
#> 10 RPTESTB RPTESTB_001 -18 STDY NA NA NA NA
#> # ℹ 2 more variables: FEVER_PRESP <chr>, FEVER_OCCUR <chr>