Partial ICNARC code conversion
Closed this issue · 1 comments
sinanshi commented
In some anonymised version, users will only receive a fraction of the ICNARC code (less than 5 digits). We should be able to map first digits to diagnosis category. E.g.
1.1.1 - > Upper airway or trachea
See
https://www.icnarc.org/Our-Audit/Audits/Cmp/Resources/Icm-Icnarc-Coding-Method
docsteveharris commented
#' Label up ICNARC organ level code
#' @export
label.icnarc.dc2 <- function(dt, dc.2.col="dc.2") {
# Add organ coding labels # as factor labels
i <- data.table(
llabel = c(
"Respiratory",
"Cardiovascular",
"Gastrointestinal",
"Neurological (including eyes)",
"Poisoning",
"Genito-urinary",
"Endocrine, Metabolic, Thermoregulation and Poisoning",
"Haematological/Immunological",
"Musculoskeletal",
"Dermatological",
"Psychiatric",
"Trauma" ),
# Order is as per coding (there is no 5)
dc.2 = c(1,2,3,4,6,7,8,9,10,11,12,13))
dt[, (dc.2.col) := factor(get(dc.2.col), levels=i$dc.2, labels=i$llabel)]
}