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adjusted with a couple of flags

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Andreas Gammelgaard Damsbo 2024-11-28 14:33:03 +01:00
parent 9390735af3
commit f431931e86
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1 changed files with 27 additions and 7 deletions
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30
R/utils.r
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@ -114,8 +114,12 @@ clean_redcap_name <- function(x) {
#' Sanitize list of data frames #' Sanitize list of data frames
#' #'
#' Removing empty rows #' Removing empty rows
#'
#' @param l A list of data frames. #' @param l A list of data frames.
#' @param generic.names A vector of generic names to be excluded. #' @param generic.names A vector of generic names to be excluded.
#' @param drop.complete logical to remove genric REDCap variables indicating
#' instrument completion. Default is TRUE.
#' @param drop.empty logical to remove variables with only NAs Default is TRUE.
#' #'
#' @return A list of data frames with generic names excluded. #' @return A list of data frames with generic names excluded.
#' #'
@ -127,21 +131,34 @@ sanitize_split <- function(l,
"redcap_event_name", "redcap_event_name",
"redcap_repeat_instrument", "redcap_repeat_instrument",
"redcap_repeat_instance" "redcap_repeat_instance"
)) { ),
drop.complete=TRUE,
drop.empty=TRUE) {
generic.names <- c( generic.names <- c(
get_id_name(l), get_id_name(l),
generic.names
)
if (drop.complete){
generic.names <- c(
generic.names, generic.names,
paste0(names(l), "_complete") paste0(names(l), "_complete")
) )
}
lapply(l, function(i) { out <- lapply(l, function(i) {
if (ncol(i) > 2) { if (ncol(i) > 2) {
s <- data.frame(i[, !colnames(i) %in% generic.names]) s <- i[!colnames(i) %in% generic.names]
if (drop.empty){
i[!apply(is.na(s), MARGIN = 1, FUN = all), ] i[!apply(is.na(s), MARGIN = 1, FUN = all), ]
}
} else { } else {
i i
} }
}) })
# On removing empty variables, a list may end up empty
out[sapply(out,nrow)>0]
} }
@ -496,5 +513,8 @@ is_repeated_longitudinal <- function(data, generics = c(
} }
dummy_fun <- function(...){
list(
gtsummary::add_difference()
)
}