P281424/AMR
1
0
Fork 0
mirror of https://github.com/msberends/AMR.git synced 2025-07-12 08:21:51 +02:00
Code Releases Activity

(v2.1.1.9186) replace antibiotics with antimicrobials!

Browse Source
This commit is contained in:
dr. M.S. (Matthijs) Berends
2025-03-07 20:43:26 +01:00
parent f2b2a450cb
commit f7938289eb
140 changed files with 4870 additions and 4702 deletions
Download Patch File Download Diff File Expand all files Collapse all files

6
R/atc_online.R
View File

@ -29,8 +29,8 @@
#' Get ATC Properties from WHOCC Website
#'
#' Gets data from the WHOCC website to determine properties of an Anatomical Therapeutic Chemical (ATC) (e.g. an antibiotic), such as the name, defined daily dose (DDD) or standard unit.
#' @param atc_code a [character] (vector) with ATC code(s) of antibiotics, will be coerced with [as.ab()] and [ab_atc()] internally if not a valid ATC code
#' Gets data from the WHOCC website to determine properties of an Anatomical Therapeutic Chemical (ATC) (e.g. an antimicrobial), such as the name, defined daily dose (DDD) or standard unit.
#' @param atc_code a [character] (vector) with ATC code(s) of antimicrobials, will be coerced with [as.ab()] and [ab_atc()] internally if not a valid ATC code
#' @param property property of an ATC code. Valid values are `"ATC"`, `"Name"`, `"DDD"`, `"U"` (`"unit"`), `"Adm.R"`, `"Note"` and `groups`. For this last option, all hierarchical groups of an ATC code will be returned, see *Examples*.
#' @param administration type of administration when using `property = "Adm.R"`, see *Details*
#' @param url url of website of the WHOCC. The sign `%s` can be used as a placeholder for ATC codes.
@ -98,7 +98,7 @@ atc_online_property <- function(atc_code,
html_text <- import_fn("html_text", "rvest")
read_html <- import_fn("read_html", "xml2")
if (!all(atc_code %in% unlist(AMR::antibiotics$atc))) {
if (!all(atc_code %in% unlist(AMR::antimicrobials$atc))) {
atc_code <- as.character(ab_atc(atc_code, only_first = TRUE))
}