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(v3.0.1.9034) Add amr_course()

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dr. M.S. (Matthijs) Berends
2026-03-11 16:07:31 +01:00
parent 353eaa3f38
commit 4dc3ec0008
8 changed files with 110 additions and 17 deletions
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R/interpretive_rules.R
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@@ -56,11 +56,6 @@ format_eucast_version_nr <- function(version, markdown = TRUE) {
#' Apply Interpretive Rules
#'
#' @description
#' **WORK IN PROGRESS**
#'
# TODO Remove this remark before next release
#' **The `interpretive_rules()` function is new, to allow CLSI 'rules' too. The old `eucast_rules()` function will stay as a wrapper, but we need to generalise more parts of the underlying code to allow more than just EUCAST.**
#'
#' Apply rules from clinical breakpoints notes and expected resistant phenotypes as defined by e.g. the European Committee on Antimicrobial Susceptibility Testing (EUCAST, <https://www.eucast.org>), see *Source*. Use [eucast_dosage()] to get a [data.frame] with advised dosages of a certain bug-drug combination, which is based on the [dosage] data set.
#'
#' To improve the interpretation of the antibiogram before CLSI/EUCAST interpretive rules are applied, some AMR-specific rules can be applied at default, see *Details*.