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Post processing function for ADFACE dataset

Source: R/post_process_reacto.R
post_process_reacto.Rd

This is used to do post processing for ADaM reactogenicity dataset, for the derived SDTM level records, the corresponding values in FA variables will be NA.

Usage

post_process_reacto(
  dataset,
  filter_dataset = FATESTCD %in% c("MAXDIAM", "MAXSEV", "MAXTEMP") | (FATESTCD ==
    "OCCUR" & FAOBJ == "FEVER")
)

Arguments

dataset

Input dataset

filter_dataset

Filter condition Conversion of records in FA variables to NA depends on this condition.

Value

The input dataframe with NA values in FA variables where the SDTM records modified for ADaM derivation purpose.

Author

Arjun Rubalingam

Examples

library(dplyr)
library(admiral)
library(tibble)

input <- tribble(
  ~USUBJID, ~FAOBJ, ~FALAT, ~FACAT, ~FASCAT, ~FATPT, ~FATESTCD, ~PARAMCD, ~AVAL,
  "ABC-1001", "FEVER", NA, "REACTO", "SYS", "DAY 1", "MAXTEMP", "MAXTEMP", 39.4,
  "ABC-1001", "VOMITING", NA, "REACTO", "SYS", "DAY 4", "MAXSEV", "MAXVOMIT", 3,
  "ABC-1001", "SWELLING", "LEFT", "REACTO", "ADMIN", "DAY 1", "MAXSEV", "MAXSWEL", 3,
  "ABC-1001", "REDNESS", "LEFT", "REACTO", "ADMIN", "DAY 2", "DIAMATER", "DIARE", 10.3,
  "ABC-1001", "FEVER", "LEFT", "REACTO", "SYS", "DAY 2", "OCCUR", "OCCFEV", NA
)

post_process_reacto(
  dataset = input,
  filter_dataset = FATESTCD %in% c("MAXSEV", "MAXTEMP") |
    (FATESTCD == "OCCUR" & FAOBJ == "FEVER")
)
#> # A tibble: 5 × 9
#>   USUBJID  FAOBJ   FALAT FACAT  FASCAT FATPT FATESTCD PARAMCD   AVAL
#>   <chr>    <chr>   <chr> <chr>  <chr>  <chr> <chr>    <chr>    <dbl>
#> 1 ABC-1001 NA      NA    NA     NA     NA    NA       MAXTEMP   39.4
#> 2 ABC-1001 NA      NA    NA     NA     NA    NA       MAXVOMIT   3  
#> 3 ABC-1001 NA      NA    NA     NA     NA    NA       MAXSWEL    3  
#> 4 ABC-1001 REDNESS LEFT  REACTO ADMIN  DAY 2 DIAMATER DIARE     10.3
#> 5 ABC-1001 NA      NA    NA     NA     NA    NA       OCCFEV    NA