derive_var_last_dose_date: Derive Last Dose Date-Time
In epijim/admiral: ADaM in R Asset Library

Description Usage Arguments Details Value Author(s) See Also Examples

View source: R/derive_var_last_dose_date.R

Add a variable for the dose date or datetime of the last dose to the input dataset.

derive_var_last_dose_date(
  dataset,
  dataset_ex,
  filter_ex = NULL,
  by_vars = vars(STUDYID, USUBJID),
  dose_id = vars(),
  dose_date,
  analysis_date,
  single_dose_condition = (EXDOSFRQ == "ONCE"),
  new_var,
  output_datetime = TRUE,
  traceability_vars = NULL
)

`dataset`	Input dataset. The variables specified by the `by_vars` and `analysis_date` parameters are expected.
`dataset_ex`	Input EX dataset. The variables specified by the `by_vars`, `dose_date`, `new_vars` parameters, and source variables from `traceability_vars` parameter are expected.
`filter_ex`	Filtering condition applied to EX dataset. For example, it can be used to filter for valid dose. Defaults to NULL.
`by_vars`	Variables to join by (created by `dplyr::vars`).
`dose_id`	Variables to identify unique dose (created by `dplyr::vars`). Defaults to empty `vars()`.
`dose_date`	The EX dose date variable.
`analysis_date`	The analysis date variable.
`single_dose_condition`	The condition for checking if `dataset_ex` is single dose. An error is issued if the condition is not true. Defaults to `(EXDOSFRQ == "ONCE")`.
`new_var`	The new date or datetime variable added to `dataset`.
`output_datetime`	Display `new_var` as datetime or as date only. Defaults to `TRUE`.
`traceability_vars`	A named list returned by `vars()` listing the traceability variables, e.g. `vars(LDOSEDOM = "EX", LDOSESEQ = EXSEQ)`. The left-hand side (names of the list elements) gives the names of the traceability variables in the returned dataset. The right-hand side (values of the list elements) gives the values of the traceability variables in the returned dataset. These can be either strings or symbols referring to existing variables.

The last dose date is derived as the maximum dose date where the dose_date is lower to or equal to the analysis_date per by_vars for each observation in dataset. When output_datetime is TRUE and time is missing, then the last dose date time is imputed to 00:00:00. However, if date is missing, then no imputation is done.

Input dataset with additional column new_var.

Ben Straub

derive_vars_last_dose()

library(dplyr, warn.conflicts = FALSE)
library(admiral.test)
data(ae)
data(ex_single)

ae %>%
  head(100) %>%
  derive_var_last_dose_date(
    head(ex_single, 100),
    filter_ex = (EXDOSE > 0 | (EXDOSE == 0 & grepl("PLACEBO", EXTRT))) &
      nchar(EXENDTC) >= 10,
    dose_date = EXENDTC,
    analysis_date = AESTDTC,
    single_dose_condition = (EXSTDTC == EXENDTC),
    new_var = LDOSEDTM,
    traceability_vars = dplyr::vars(LDOSEDOM = "EX", LDOSESEQ = EXSEQ, LDOSEVAR = "EXDOSE")
  ) %>%
  select(STUDYID, USUBJID, AESEQ, AESTDTC, LDOSEDOM, LDOSESEQ, LDOSEVAR, LDOSEDTM)