This check looks for missing AEDECOD values
check_ae_aedecod(AE, preproc = identity, ...)Adverse Events SDTM dataset with variables USUBJID, AETERM, AEDECOD
An optional company specific preprocessing script
Other arguments passed to methods
boolean value if check failed or passed with 'msg' attribute if the test failed
AE <- data.frame(
USUBJID = 1:5,
DOMAIN = c(rep("AE", 5)),
AESEQ = 1:5,
AESTDTC = 1:5,
AETERM = 1:5,
AEDECOD = 1:5,
AESPID = c("FORMNAME-R:13/L:13XXXX",
"FORMNAME-R:16/L:16XXXX",
"FORMNAME-R:2/L:2XXXX",
"FORMNAME-R:19/L:19XXXX",
"FORMNAME-R:5/L:5XXXX"),
stringsAsFactors = FALSE
)
check_ae_aedecod(AE)
#> [1] TRUE
AE$AEDECOD[1] = NA
AE$AEDECOD[2] = "NA"
AE$AEDECOD[3:5] = ""
check_ae_aedecod(AE)
#> [1] FALSE
#> attr(,"msg")
#> [1] "AE has 5 record(s) with missing AEDECOD. "
#> attr(,"data")
#> USUBJID AESTDTC AETERM AEDECOD
#> 1 1 1 1 <NA>
#> 2 2 2 2 NA
#> 3 3 3 3
#> 4 4 4 4
#> 5 5 5 5
check_ae_aedecod(AE,preproc=roche_derive_rave_row)
#> [1] FALSE
#> attr(,"msg")
#> [1] "AE has 5 record(s) with missing AEDECOD. "
#> attr(,"data")
#> USUBJID RAVE AESTDTC AETERM AEDECOD
#> 1 1 FORMNAME-R:13 1 1 <NA>
#> 2 2 FORMNAME-R:16 2 2 NA
#> 3 3 FORMNAME-R:2 3 3
#> 4 4 FORMNAME-R:19 4 4
#> 5 5 FORMNAME-R:5 5 5
AE$AEDECOD <- NULL
check_ae_aedecod(AE)
#> [1] FALSE
#> attr(,"msg")
#> [1] "AE is missing the variable: AEDECOD"