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(v2.1.1.9276) mdro() fix

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dr. M.S. (Matthijs) Berends
2025-05-15 10:39:48 +02:00
parent 48a59ee31a
commit 4b171745de
14 changed files with 64 additions and 94 deletions
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R/amr_selectors.R
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@ -40,7 +40,7 @@
#' ```
#' @param amr_class An antimicrobial class or a part of it, such as `"carba"` and `"carbapenems"`. The columns `group`, `atc_group1` and `atc_group2` of the [antimicrobials] data set will be searched (case-insensitive) for this value.
#' @param filter An [expression] to be evaluated in the [antimicrobials] data set, such as `name %like% "trim"`.
#' @param only_sir_columns A [logical] to indicate whether only columns of class `sir` must be selected (default is `FALSE`), see [as.sir()].
#' @param only_sir_columns A [logical] to indicate whether only antimicrobial columns must be included that were transformed to class [sir][as.sir()] on beforehand. Defaults to `FALSE`.
#' @param only_treatable A [logical] to indicate whether antimicrobial drugs should be excluded that are only for laboratory tests (default is `TRUE`), such as gentamicin-high (`GEH`) and imipenem/EDTA (`IPE`).
#' @param return_all A [logical] to indicate whether all matched columns must be returned (default is `TRUE`). With `FALSE`, only the first of each unique antimicrobial will be returned, e.g. if both columns `"genta"` and `"gentamicin"` exist in the data, only the first hit for gentamicin will be returned.
#' @param ... Ignored, only in place to allow future extensions.