(v1.7.1.9069) CLSI 2021 support

.github/workflows/check.yaml

@@ -59,8 +59,8 @@ jobs:
           - {os: macOS-latest,   r: '3.4',     allowfail: false}
           - {os: macOS-latest,   r: '3.3',     allowfail: false}
           - {os: macOS-latest,   r: '3.2',     allowfail: false}
-          - {os: macOS-latest,   r: '3.1',     allowfail: true}
-          - {os: macOS-latest,   r: '3.0',     allowfail: true}
+          # - {os: macOS-latest,   r: '3.1',     allowfail: true}
+          # - {os: macOS-latest,   r: '3.0',     allowfail: true}
           - {os: ubuntu-20.04,   r: 'devel',   allowfail: true,  rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"}
           - {os: ubuntu-20.04,   r: '4.1',     allowfail: false, rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"}
           - {os: ubuntu-20.04,   r: '4.0',     allowfail: false, rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"}
@@ -78,9 +78,9 @@ jobs:
           - {os: windows-latest, r: '3.5',     allowfail: false}
           - {os: windows-latest, r: '3.4',     allowfail: false}
           - {os: windows-latest, r: '3.3',     allowfail: false}
-          - {os: windows-latest, r: '3.2',     allowfail: true}
-          - {os: windows-latest, r: '3.1',     allowfail: true}
-          - {os: windows-latest, r: '3.0',     allowfail: true}
+          # - {os: windows-latest, r: '3.2',     allowfail: true}
+          # - {os: windows-latest, r: '3.1',     allowfail: true}
+          # - {os: windows-latest, r: '3.0',     allowfail: true}
     env:
       R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
       RSPM: ${{ matrix.config.rspm }}

DESCRIPTION

@@ -1,6 +1,6 @@
 Package: AMR
-Version: 1.7.1.9066
-Date: 2021-12-11
+Version: 1.7.1.9069
+Date: 2021-12-12
 Title: Antimicrobial Resistance Data Analysis
 Description: Functions to simplify and standardise antimicrobial resistance (AMR)
     data analysis and to work with microbial and antimicrobial properties by

NAMESPACE

@@ -230,8 +230,8 @@ export(fluoroquinolones)
 export(full_join_microorganisms)
 export(g.test)
 export(geom_rsi)
+export(get_AMR_locale)
 export(get_episode)
-export(get_locale)
 export(get_mo_source)
 export(ggplot_pca)
 export(ggplot_rsi)

NEWS.md

@@ -1,14 +1,18 @@
-# `AMR` 1.7.1.9066
-## <small>Last updated: 11 December 2021</small>
+# `AMR` 1.7.1.9069
+## <small>Last updated: 12 December 2021</small>
+
+All functions in this package are now all considered to be stable. Updates to the AMR interpretation rules (such as by EUCAST and CLSI), the microbial taxonomy, and the antibiotic dosages will all be updated every 6 to 12 months from now on.
 
 ### Breaking changes
 * Removed `p_symbol()` and all `filter_*()` functions (except for `filter_first_isolate()`), which were all deprecated in a previous package version
 * Removed the `key_antibiotics()` and `key_antibiotics_equal()` functions, which were deprecated and superseded by `key_antimicrobials()` and `antimicrobials_equal()`
 * Removed all previously implemented `ggplot2::ggplot()` generics for classes `<mic>`, `<disk>`, `<rsi>` and `<resistance_predict>` as they did not follow the `ggplot2` logic. They were replaced with `ggplot2::autoplot()` generics.
+* Renamed function `get_locale()` to `get_AMR_locale()` to prevent conflicts with other packages
 
 ### New
+* Support for the CLSI 2021 guideline for interpreting MIC/disk diffusion values, which are incorporated in the `rsi_translation` data set
 * Support for EUCAST Intrinsic Resistance and Unusual Phenotypes v3.3 (October 2021). This is now the default EUCAST guideline in the package (all older guidelines are still available) for `eucast_rules()`, `mo_intrinsic_resistant()` and `mdro()`. The `intrinsic_resistant` data set was also updated accordingly.
-* Support for Danish, and also added missing translations of all antimicrobial drugs in Italian, French and Portuguese
+* Support for all antimicrobial drug (group) names and colloquial microorganism names in Danish, Dutch, English, French, German, Italian, Portuguese, Russian, Spanish and Swedish
 * Function `set_ab_names()` to rename data set columns that resemble antimicrobial drugs. This allows for quickly renaming columns to official names, ATC codes, etc. Its second argument can be a tidyverse way of selecting:
   ```r
   example_isolates %>% set_ab_names(where(is.rsi))
@@ -50,7 +54,7 @@
 * When printing a tibble with any old MO code, a warning will be thrown that old codes should be updated using `as.mo()`
 * Improved automatic column selector when `col_*` arguments are left blank, e.g. in `first_isolate()`
 * The right input types for `random_mic()`, `random_disk()` and `random_rsi()` are now enforced
-* `as.rsi()` has an improved algorithm and can now also correct for textual input (such as "Susceptible", "Resistant") in Danish, Dutch, English, French, German, Italian, Portuguese and Spanish
+* `as.rsi()` has an improved algorithm and can now also correct for textual input (such as "Susceptible", "Resistant") in all supported languages
 * `as.mic()` has an improved algorithm
 * When warnings are thrown because of too few isolates in any `count_*()`, `proportion_*()` function (or `resistant()` or `susceptible()`), the `dplyr` group will be shown, if available
 * Fix for legends created with `scale_rsi_colours()` when using `ggplot2` v3.3.4 or higher (this is ggplot2 bug 4511, soon to be fixed)
@@ -68,7 +72,7 @@
 * `get_episode()` and `is_new_episode()` can now cope with `NA`s
 
 ### Other
-* This package is now being maintained by two epidemiologists and a data scientist from two different non-profit healthcare organisations. All functions in this package are now all considered to be stable. Updates to the AMR interpretation rules (such as by EUCAST and CLSI), the microbial taxonomy, and the antibiotic dosages will all be updated every 6 to 12 months from now on.
+* This package is now being maintained by two epidemiologists and a data scientist from two different non-profit healthcare organisations.
 
 
 # AMR 1.7.1

R/ab_property.R

@@ -30,7 +30,7 @@
 #' @param x any (vector of) text that can be coerced to a valid antibiotic code with [as.ab()]
 #' @param tolower a [logical] to indicate whether the first [character] of every output should be transformed to a lower case [character]. This will lead to e.g. "polymyxin B" and not "polymyxin b".
 #' @param property one of the column names of one of the [antibiotics] data set: `vector_or(colnames(antibiotics), sort = FALSE)`.
-#' @param language language of the returned text, defaults to system language (see [get_locale()]) and can also be set with `getOption("AMR_locale")`. Use `language = NULL` or `language = ""` to prevent translation.
+#' @param language language of the returned text, defaults to system language (see [get_AMR_locale()]) and can also be set with `getOption("AMR_locale")`. Use `language = NULL` or `language = ""` to prevent translation.
 #' @param administration way of administration, either `"oral"` or `"iv"`
 #' @param open browse the URL using [utils::browseURL()]
 #' @param ... in case of [set_ab_names()] and `data` is a [data.frame]: variables to select (supports tidy selection such as `column1:column4`), otherwise other arguments passed on to [as.ab()]
@@ -120,7 +120,7 @@
 #'    colnames()
 #' }
 #' }
-ab_name <- function(x, language = get_locale(), tolower = FALSE, ...) {
+ab_name <- function(x, language = get_AMR_locale(), tolower = FALSE, ...) {
   meet_criteria(x, allow_NA = TRUE)
   meet_criteria(language, has_length = 1, is_in = c(LANGUAGES_SUPPORTED, ""), allow_NULL = TRUE, allow_NA = TRUE)
   meet_criteria(tolower, allow_class = "logical", has_length = 1)
@@ -163,7 +163,7 @@ ab_tradenames <- function(x, ...) {
 
 #' @rdname ab_property
 #' @export
-ab_group <- function(x, language = get_locale(), ...) {
+ab_group <- function(x, language = get_AMR_locale(), ...) {
   meet_criteria(x, allow_NA = TRUE)
   meet_criteria(language, has_length = 1, is_in = c(LANGUAGES_SUPPORTED, ""), allow_NULL = TRUE, allow_NA = TRUE)
   translate_AMR(ab_validate(x = x, property = "group", ...), language = language, only_affect_ab_names = TRUE)
@@ -201,7 +201,7 @@ ab_atc <- function(x, only_first = FALSE, ...) {
 
 #' @rdname ab_property
 #' @export
-ab_atc_group1 <- function(x, language = get_locale(), ...) {
+ab_atc_group1 <- function(x, language = get_AMR_locale(), ...) {
   meet_criteria(x, allow_NA = TRUE)
   meet_criteria(language, has_length = 1, is_in = c(LANGUAGES_SUPPORTED, ""), allow_NULL = TRUE, allow_NA = TRUE)
   translate_AMR(ab_validate(x = x, property = "atc_group1", ...), language = language, only_affect_ab_names = TRUE)
@@ -209,7 +209,7 @@ ab_atc_group1 <- function(x, language = get_locale(), ...) {
 
 #' @rdname ab_property
 #' @export
-ab_atc_group2 <- function(x, language = get_locale(), ...) {
+ab_atc_group2 <- function(x, language = get_AMR_locale(), ...) {
   meet_criteria(x, allow_NA = TRUE)
   meet_criteria(language, has_length = 1, is_in = c(LANGUAGES_SUPPORTED, ""), allow_NULL = TRUE, allow_NA = TRUE)
   translate_AMR(ab_validate(x = x, property = "atc_group2", ...), language = language, only_affect_ab_names = TRUE)
@@ -276,7 +276,7 @@ ab_ddd_units <- function(x, administration = "oral", ...) {
 
 #' @rdname ab_property
 #' @export
-ab_info <- function(x, language = get_locale(), ...) {
+ab_info <- function(x, language = get_AMR_locale(), ...) {
   meet_criteria(x, allow_NA = TRUE)
   meet_criteria(language, has_length = 1, is_in = c(LANGUAGES_SUPPORTED, ""), allow_NULL = TRUE, allow_NA = TRUE)
   
@@ -327,7 +327,7 @@ ab_url <- function(x, open = FALSE, ...) {
 
 #' @rdname ab_property
 #' @export
-ab_property <- function(x, property = "name", language = get_locale(), ...) {
+ab_property <- function(x, property = "name", language = get_AMR_locale(), ...) {
   meet_criteria(x, allow_NA = TRUE)
   meet_criteria(property, is_in = colnames(antibiotics), has_length = 1)
   meet_criteria(language, is_in = c(LANGUAGES_SUPPORTED, ""), has_length = 1, allow_NULL = TRUE, allow_NA = TRUE)
@@ -337,7 +337,7 @@ ab_property <- function(x, property = "name", language = get_locale(), ...) {
 #' @rdname ab_property
 #' @aliases ATC
 #' @export
-set_ab_names <- function(data, ..., property = "name", language = get_locale(), snake_case = NULL) {
+set_ab_names <- function(data, ..., property = "name", language = get_AMR_locale(), snake_case = NULL) {
   meet_criteria(data, allow_class = c("data.frame", "character"))
   meet_criteria(property, is_in = colnames(antibiotics), has_length = 1, ignore.case = TRUE)
   meet_criteria(language, has_length = 1, is_in = c(LANGUAGES_SUPPORTED, ""), allow_NULL = TRUE, allow_NA = TRUE)

R/bug_drug_combinations.R

@@ -162,7 +162,7 @@ bug_drug_combinations <- function(x,
 #' @rdname bug_drug_combinations
 format.bug_drug_combinations <- function(x,
                                          translate_ab = "name (ab, atc)",
-                                         language = get_locale(),
+                                         language = get_AMR_locale(),
                                          minimum = 30,
                                          combine_SI = TRUE,
                                          combine_IR = FALSE,

R/count.R

@@ -213,7 +213,7 @@ n_rsi <- count_all
 #' @export
 count_df <- function(data,
                      translate_ab = "name",
-                     language = get_locale(),
+                     language = get_AMR_locale(),
                      combine_SI = TRUE,
                      combine_IR = FALSE) {
   tryCatch(

R/first_isolate.R

@@ -490,8 +490,6 @@ first_isolate <- function(x = NULL,
                                          FALSE)
   } else {
     # no key antibiotics
-    x1 <<- x$other_pat_or_mo
-    x2 <<- x$more_than_episode_ago
     x$newvar_first_isolate <- pm_if_else(x$newvar_row_index_sorted >= row.start &
                                            x$newvar_row_index_sorted <= row.end &
                                            x$newvar_genus_species != "" & 

R/ggplot_rsi.R

@@ -158,7 +158,7 @@ ggplot_rsi <- function(data,
                        combine_SI = TRUE,
                        combine_IR = FALSE,
                        minimum = 30,
-                       language = get_locale(),
+                       language = get_AMR_locale(),
                        nrow = NULL,
                        colours = c(S = "#3CAEA3",
                                    SI = "#3CAEA3",
@@ -269,7 +269,7 @@ geom_rsi <- function(position = NULL,
                      fill = "interpretation",
                      translate_ab = "name",
                      minimum = 30,
-                     language = get_locale(),
+                     language = get_AMR_locale(),
                      combine_SI = TRUE,
                      combine_IR = FALSE,
                      ...)  {
@@ -438,7 +438,7 @@ labels_rsi_count <- function(position = NULL,
                              x = "antibiotic",
                              translate_ab = "name",
                              minimum = 30,
-                             language = get_locale(),
+                             language = get_AMR_locale(),
                              combine_SI = TRUE,
                              combine_IR = FALSE,
                              datalabels.size = 3,

R/like.R

@@ -124,31 +124,23 @@ like <- function(x, pattern, ignore.case = TRUE) {
 #' @rdname like
 #' @export
 "%like%" <- function(x, pattern) {
-  meet_criteria(x, allow_NA = TRUE)
-  meet_criteria(pattern, allow_NA = FALSE)
   like(x, pattern, ignore.case = TRUE)
 }
 
 #' @rdname like
 #' @export
 "%unlike%" <- function(x, pattern) {
-  meet_criteria(x, allow_NA = TRUE)
-  meet_criteria(pattern, allow_NA = FALSE)
   !like(x, pattern, ignore.case = TRUE)
 }
 
 #' @rdname like
 #' @export
 "%like_case%" <- function(x, pattern) {
-  meet_criteria(x, allow_NA = TRUE)
-  meet_criteria(pattern, allow_NA = FALSE)
   like(x, pattern, ignore.case = FALSE)
 }
 
 #' @rdname like
 #' @export
 "%unlike_case%" <- function(x, pattern) {
-  meet_criteria(x, allow_NA = TRUE)
-  meet_criteria(pattern, allow_NA = FALSE)
   !like(x, pattern, ignore.case = FALSE)
 }

R/mo.R

@@ -37,7 +37,7 @@
 #' @param allow_uncertain a number between `0` (or `"none"`) and `3` (or `"all"`), or `TRUE` (= `2`) or `FALSE` (= `0`) to indicate whether the input should be checked for less probable results, see *Details*
 #' @param reference_df a [data.frame] to be used for extra reference when translating `x` to a valid [`mo`]. See [set_mo_source()] and [get_mo_source()] to automate the usage of your own codes (e.g. used in your analysis or organisation).
 #' @param ignore_pattern a regular expression (case-insensitive) of which all matches in `x` must return `NA`. This can be convenient to exclude known non-relevant input and can also be set with the option `AMR_ignore_pattern`, e.g. `options(AMR_ignore_pattern = "(not reported|contaminated flora)")`.
-#' @param language language to translate text like "no growth", which defaults to the system language (see [get_locale()])
+#' @param language language to translate text like "no growth", which defaults to the system language (see [get_AMR_locale()])
 #' @param info a [logical] to indicate if a progress bar should be printed if more than 25 items are to be coerced, defaults to `TRUE` only in interactive mode
 #' @param ... other arguments passed on to functions
 #' @rdname as.mo
@@ -161,7 +161,7 @@ as.mo <- function(x,
                   allow_uncertain = TRUE,
                   reference_df = get_mo_source(),
                   ignore_pattern = getOption("AMR_ignore_pattern"),
-                  language = get_locale(),
+                  language = get_AMR_locale(),
                   info = interactive(),
                   ...) {
   meet_criteria(x, allow_class = c("mo", "data.frame", "list", "character", "numeric", "integer", "factor"), allow_NA = TRUE)
@@ -267,7 +267,7 @@ exec_as.mo <- function(x,
                        reference_data_to_use = MO_lookup,
                        actual_uncertainty = 1,
                        actual_input = NULL,
-                       language = get_locale()) {
+                       language = get_AMR_locale()) {
   meet_criteria(x, allow_class = c("mo", "data.frame", "list", "character", "numeric", "integer", "factor"), allow_NA = TRUE)
   meet_criteria(Becker, allow_class = c("logical", "character"), has_length = 1)
   meet_criteria(Lancefield, allow_class = c("logical", "character"), has_length = 1)
@@ -1482,9 +1482,9 @@ exec_as.mo <- function(x,
         uncertainties <- as.list(pm_distinct(uncertainties, input, .keep_all = TRUE))
         pkg_env$mo_uncertainties <- uncertainties
         if (message_not_thrown_before("as.mo", "uncertainties", uncertainties$input)) {
-          plural <- c("", "this", "uncertainty")
+          plural <- c("", "this")
           if (length(uncertainties$input) > 1) {
-            plural <- c("s", "these", "uncertainties")
+            plural <- c("s", "these uncertainties")
           }
           if (length(uncertainties$input) <= 3) {
             examples <- vector_and(paste0('"', uncertainties$input,
@@ -1494,7 +1494,7 @@ exec_as.mo <- function(x,
             examples <- paste0(nr2char(length(uncertainties$input)), " microorganism", plural[1])
           }
           msg <- paste0("Function `as.mo()` is uncertain about ", examples,
-                        ". Run `mo_uncertainties()` to review ", plural[2], " ", plural[3], ".")
+                        ". Run `mo_uncertainties()` to review ", plural[2], ".")
           message_(msg)
         }
       }

R/mo_property.R

@@ -29,7 +29,7 @@
 #' @inheritSection lifecycle Stable Lifecycle
 #' @param x any [character] (vector) that can be coerced to a valid microorganism code with [as.mo()]. Can be left blank for auto-guessing the column containing microorganism codes if used in a data set, see *Examples*.
 #' @param property one of the column names of the [microorganisms] data set: `r vector_or(colnames(microorganisms), sort = FALSE, quotes = TRUE)`, or must be `"shortname"`
-#' @param language language of the returned text, defaults to system language (see [get_locale()]) and can be overwritten by setting the option `AMR_locale`, e.g. `options(AMR_locale = "de")`, see [translate]. Also used to translate text like "no growth". Use `language = NULL` or `language = ""` to prevent translation.
+#' @param language language of the returned text, defaults to system language (see [get_AMR_locale()]) and can be overwritten by setting the option `AMR_locale`, e.g. `options(AMR_locale = "de")`, see [translate]. Also used to translate text like "no growth". Use `language = NULL` or `language = ""` to prevent translation.
 #' @param ... other arguments passed on to [as.mo()], such as 'allow_uncertain' and 'ignore_pattern'
 #' @param ab any (vector of) text that can be coerced to a valid antibiotic code with [as.ab()]
 #' @param open browse the URL using [`browseURL()`][utils::browseURL()]
@@ -170,7 +170,7 @@
 #' mo_info("E. coli")
 #' }
 #' }
-mo_name <- function(x, language = get_locale(), ...) {
+mo_name <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_name")
@@ -190,7 +190,7 @@ mo_fullname <- mo_name
 
 #' @rdname mo_property
 #' @export
-mo_shortname <- function(x, language = get_locale(), ...) {
+mo_shortname <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_shortname")
@@ -230,7 +230,7 @@ mo_shortname <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_subspecies <- function(x, language = get_locale(), ...) {
+mo_subspecies <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_subspecies")
@@ -243,7 +243,7 @@ mo_subspecies <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_species <- function(x, language = get_locale(), ...) {
+mo_species <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_species")
@@ -256,7 +256,7 @@ mo_species <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_genus <- function(x, language = get_locale(), ...) {
+mo_genus <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_genus")
@@ -269,7 +269,7 @@ mo_genus <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_family <- function(x, language = get_locale(), ...) {
+mo_family <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_family")
@@ -282,7 +282,7 @@ mo_family <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_order <- function(x, language = get_locale(), ...) {
+mo_order <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_order")
@@ -295,7 +295,7 @@ mo_order <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_class <- function(x, language = get_locale(), ...) {
+mo_class <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_class")
@@ -308,7 +308,7 @@ mo_class <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_phylum <- function(x, language = get_locale(), ...) {
+mo_phylum <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_phylum")
@@ -321,7 +321,7 @@ mo_phylum <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_kingdom <- function(x, language = get_locale(), ...) {
+mo_kingdom <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_kingdom")
@@ -338,7 +338,7 @@ mo_domain <- mo_kingdom
 
 #' @rdname mo_property
 #' @export
-mo_type <- function(x, language = get_locale(), ...) {
+mo_type <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_type")
@@ -354,7 +354,7 @@ mo_type <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_gramstain <- function(x, language = get_locale(), ...) {
+mo_gramstain <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_gramstain")
@@ -385,7 +385,7 @@ mo_gramstain <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_is_gram_negative <- function(x, language = get_locale(), ...) {
+mo_is_gram_negative <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_is_gram_negative")
@@ -404,7 +404,7 @@ mo_is_gram_negative <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_is_gram_positive <- function(x, language = get_locale(), ...) {
+mo_is_gram_positive <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_is_gram_positive")
@@ -423,7 +423,7 @@ mo_is_gram_positive <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_is_yeast <- function(x, language = get_locale(), ...) {
+mo_is_yeast <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_is_yeast")
@@ -449,7 +449,7 @@ mo_is_yeast <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_is_intrinsic_resistant <- function(x, ab, language = get_locale(), ...) {
+mo_is_intrinsic_resistant <- function(x, ab, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_is_intrinsic_resistant")
@@ -483,7 +483,7 @@ mo_is_intrinsic_resistant <- function(x, ab, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_snomed <- function(x, language = get_locale(), ...) {
+mo_snomed <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_snomed")
@@ -496,7 +496,7 @@ mo_snomed <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_ref <- function(x, language = get_locale(), ...) {
+mo_ref <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_ref")
@@ -509,7 +509,7 @@ mo_ref <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_authors <- function(x, language = get_locale(), ...) {
+mo_authors <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_authors")
@@ -525,7 +525,7 @@ mo_authors <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_year <- function(x, language = get_locale(), ...) {
+mo_year <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_year")
@@ -541,7 +541,7 @@ mo_year <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_lpsn <- function(x, language = get_locale(), ...) {
+mo_lpsn <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_rank")
@@ -554,7 +554,7 @@ mo_lpsn <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_rank <- function(x, language = get_locale(), ...) {
+mo_rank <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_rank")
@@ -567,7 +567,7 @@ mo_rank <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_taxonomy <- function(x, language = get_locale(),  ...) {
+mo_taxonomy <- function(x, language = get_AMR_locale(),  ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_taxonomy")
@@ -593,7 +593,7 @@ mo_taxonomy <- function(x, language = get_locale(),  ...) {
 
 #' @rdname mo_property
 #' @export
-mo_synonyms <- function(x, language = get_locale(), ...) {
+mo_synonyms <- function(x, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_synonyms")
@@ -626,7 +626,7 @@ mo_synonyms <- function(x, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_info <- function(x, language = get_locale(),  ...) {
+mo_info <- function(x, language = get_AMR_locale(),  ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_info")
@@ -657,7 +657,7 @@ mo_info <- function(x, language = get_locale(),  ...) {
 
 #' @rdname mo_property
 #' @export
-mo_url <- function(x, open = FALSE, language = get_locale(), ...) {
+mo_url <- function(x, open = FALSE, language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_url")
@@ -696,7 +696,7 @@ mo_url <- function(x, open = FALSE, language = get_locale(), ...) {
 
 #' @rdname mo_property
 #' @export
-mo_property <- function(x, property = "fullname", language = get_locale(), ...) {
+mo_property <- function(x, property = "fullname", language = get_AMR_locale(), ...) {
   if (missing(x)) {
     # this tries to find the data and an <mo> column
     x <- find_mo_col(fn = "mo_property")

R/plot.R

@@ -35,7 +35,7 @@
 #' @param main,title title of the plot
 #' @param xlab,ylab axis title
 #' @param colours_RSI colours to use for filling in the bars, must be a vector of three values (in the order R, S and I). The default colours are colour-blind friendly.
-#' @param language language to be used to translate 'Susceptible', 'Increased exposure'/'Intermediate' and 'Resistant', defaults to system language (see [get_locale()]) and can be overwritten by setting the option `AMR_locale`, e.g. `options(AMR_locale = "de")`, see [translate]. Use `language = NULL` or `language = ""` to prevent translation.
+#' @param language language to be used to translate 'Susceptible', 'Increased exposure'/'Intermediate' and 'Resistant', defaults to system language (see [get_AMR_locale()]) and can be overwritten by setting the option `AMR_locale`, e.g. `options(AMR_locale = "de")`, see [translate]. Use `language = NULL` or `language = ""` to prevent translation.
 #' @param expand a [logical] to indicate whether the range on the x axis should be expanded between the lowest and highest value. For MIC values, intermediate values will be factors of 2 starting from the highest MIC value. For disk diameters, the whole diameter range will be filled.
 #' @details
 #' The interpretation of "I" will be named "Increased exposure" for all EUCAST guidelines since 2019, and will be named "Intermediate" in all other cases.
@@ -83,7 +83,7 @@ plot.mic <- function(x,
                      ylab = "Frequency",
                      xlab = "Minimum Inhibitory Concentration (mg/L)",
                      colours_RSI = c("#ED553B", "#3CAEA3", "#F6D55C"),
-                     language = get_locale(),
+                     language = get_AMR_locale(),
                      expand = TRUE,
                      ...) {
   meet_criteria(mo, allow_class = c("mo", "character"), allow_NULL = TRUE)
@@ -169,7 +169,7 @@ barplot.mic <- function(height,
                         ylab = "Frequency",
                         xlab = "Minimum Inhibitory Concentration (mg/L)",
                         colours_RSI = c("#ED553B", "#3CAEA3", "#F6D55C"),
-                        language = get_locale(),
+                        language = get_AMR_locale(),
                         expand = TRUE,
                         ...) {
   meet_criteria(main, allow_class = "character", has_length = 1, allow_NULL = TRUE)
@@ -214,7 +214,7 @@ autoplot.mic <- function(object,
                          ylab = "Frequency",
                          xlab = "Minimum Inhibitory Concentration (mg/L)",
                          colours_RSI = c("#ED553B", "#3CAEA3", "#F6D55C"),
-                         language = get_locale(),
+                         language = get_AMR_locale(),
                          expand = TRUE,
                          ...) {
   stop_ifnot_installed("ggplot2")
@@ -305,7 +305,7 @@ plot.disk <- function(x,
                       ab = NULL,
                       guideline = "EUCAST",
                       colours_RSI = c("#ED553B", "#3CAEA3", "#F6D55C"),
-                      language = get_locale(),
+                      language = get_AMR_locale(),
                       expand = TRUE,
                       ...) {
   meet_criteria(main, allow_class = "character", has_length = 1, allow_NULL = TRUE)
@@ -392,7 +392,7 @@ barplot.disk <- function(height,
                          ab = NULL,
                          guideline = "EUCAST",
                          colours_RSI = c("#ED553B", "#3CAEA3", "#F6D55C"),
-                         language = get_locale(),
+                         language = get_AMR_locale(),
                          expand = TRUE,
                          ...) {
   meet_criteria(main, allow_class = "character", has_length = 1, allow_NULL = TRUE)
@@ -437,7 +437,7 @@ autoplot.disk <- function(object,
                           xlab = "Disk diffusion diameter (mm)",
                           guideline = "EUCAST",
                           colours_RSI = c("#ED553B", "#3CAEA3", "#F6D55C"),
-                          language = get_locale(),
+                          language = get_AMR_locale(),
                           expand = TRUE,
                           ...) {
   stop_ifnot_installed("ggplot2")
@@ -579,7 +579,7 @@ barplot.rsi <- function(height,
                         xlab = "Antimicrobial Interpretation",
                         ylab = "Frequency",
                         colours_RSI = c("#ED553B", "#3CAEA3", "#F6D55C"),
-                        language = get_locale(),
+                        language = get_AMR_locale(),
                         expand = TRUE,
                         ...) {
   meet_criteria(xlab, allow_class = "character", has_length = 1)
@@ -623,7 +623,7 @@ autoplot.rsi <- function(object,
                          xlab = "Antimicrobial Interpretation",
                          ylab = "Frequency",
                          colours_RSI = c("#ED553B", "#3CAEA3", "#F6D55C"),
-                         language = get_locale(),
+                         language = get_AMR_locale(),
                          ...) {
   stop_ifnot_installed("ggplot2")
   meet_criteria(title, allow_class = "character", allow_NULL = TRUE)

R/proportion.R

@@ -277,7 +277,7 @@ proportion_S <- function(...,
 #' @export
 proportion_df <- function(data,
                           translate_ab = "name",
-                          language = get_locale(),
+                          language = get_AMR_locale(),
                           minimum = 30,
                           as_percent = FALSE,
                           combine_SI = TRUE,

R/rsi_calc.R

@@ -202,7 +202,7 @@ rsi_calc <- function(...,
 rsi_calc_df <- function(type, # "proportion", "count" or "both"
                         data,
                         translate_ab = "name",
-                        language = get_locale(),
+                        language = get_AMR_locale(),
                         minimum = 30,
                         as_percent = FALSE,
                         combine_SI = TRUE,

R/rsi_df.R

@@ -27,7 +27,7 @@
 #' @export
 rsi_df <- function(data,
                    translate_ab = "name",
-                   language = get_locale(),
+                   language = get_AMR_locale(),
                    minimum = 30,
                    as_percent = FALSE,
                    combine_SI = TRUE,

R/translate.R

@@ -29,7 +29,7 @@
 #' @inheritSection lifecycle Stable Lifecycle
 #' @details Strings will be translated to foreign languages if they are defined in a local translation file. Additions to this file can be suggested at our repository. The file can be found here: <https://github.com/msberends/AMR/blob/main/data-raw/translations.tsv>. This file will be read by all functions where a translated output can be desired, like all [`mo_*`][mo_property()] functions (such as [mo_name()], [mo_gramstain()], [mo_type()], etc.) and [`ab_*`][ab_property()] functions (such as [ab_name()], [ab_group()], etc.). 
 #'
-#' Currently supported languages are: `r vector_and(gsub(";.*", "", ISOcodes::ISO_639_2[which(ISOcodes::ISO_639_2$Alpha_2 %in% LANGUAGES_SUPPORTED), "Name"]), quotes = FALSE)`. All these languages have translations available for all antimicrobial agents and colloquial microorganism names.
+#' Currently supported languages are: `r vector_and(names(LANGUAGES_SUPPORTED), quotes = FALSE)`. All these languages have translations available for all antimicrobial agents and colloquial microorganism names.
 #'
 #' Please suggest your own translations [by creating a new issue on our repository](https://github.com/msberends/AMR/issues/new?title=Translations).
 #'
@@ -39,7 +39,7 @@
 #'   1. Setting the R option `AMR_locale`, e.g. by running `options(AMR_locale = "de")`
 #'   2. Setting the system variable `LANGUAGE` or `LANG`, e.g. by adding `LANGUAGE="de_DE.utf8"` to your `.Renviron` file in your home directory
 #' 
-#' So if the R option `AMR_locale` is set, the system variables `LANGUAGE` and `LANG` will be ignored.
+#' Thus, if the R option `AMR_locale` is set, the system variables `LANGUAGE` and `LANG` will be ignored.
 #' @inheritSection AMR Read more on Our Website!
 #' @rdname translate
 #' @name translate
@@ -47,15 +47,15 @@
 #' @examples
 #' # The 'language' argument of below functions
 #' # will be set automatically to your system language
-#' # with get_locale()
+#' # with get_AMR_locale()
 #'
 #' # English
 #' mo_name("CoNS", language = "en")
 #' #> "Coagulase-negative Staphylococcus (CoNS)"
 #'
 #' # Danish
-#' mo_name("CoNS", language = "nl")
-#' #> "Koagulase-negative stafylokokker (CoNS)"
+#' mo_name("CoNS", language = "da")
+#' #> "Koagulase-negative stafylokokker (KNS)"
 #' 
 #' # Dutch
 #' mo_name("CoNS", language = "nl")
@@ -76,7 +76,7 @@
 #' # Spanish
 #' mo_name("CoNS", language = "es")
 #' #> "Staphylococcus coagulasa negativo (SCN)"
-get_locale <- function() {
+get_AMR_locale <- function() {
   # AMR versions 1.3.0 and prior used the environmental variable:
   if (!identical("", Sys.getenv("AMR_locale"))) {
     options(AMR_locale = Sys.getenv("AMR_locale"))
@@ -88,10 +88,10 @@ get_locale <- function() {
       return(lang)
     } else {
       stop_("unsupported language set as option 'AMR_locale': \"", lang, "\" - use either ",
-            vector_or(LANGUAGES_SUPPORTED, quotes = TRUE))
+            vector_or(paste0('"', LANGUAGES_SUPPORTED, '" (', names(LANGUAGES_SUPPORTED), ")"), quotes = FALSE))
     }
   } else {
-    # we now support the LANGUAGE system variable - return it if set
+    # now check the LANGUAGE system variable - return it if set
     if (!identical("", Sys.getenv("LANGUAGE"))) {
       return(coerce_language_setting(Sys.getenv("LANGUAGE")))
     }
@@ -100,11 +100,22 @@ get_locale <- function() {
     }
   }
   
+  # fallback - automatic determination based on LC_COLLATE
+  if (interactive() && message_not_thrown_before("get_AMR_locale", entire_session = TRUE)) {
+    lang <- coerce_language_setting(Sys.getlocale("LC_COLLATE"))
+    if (lang != "en") {
+      message_("Assuming the ", names(LANGUAGES_SUPPORTED)[LANGUAGES_SUPPORTED == lang], 
+               " language for the AMR package. Change this with `options(AMR_locale = \"...\")` or see `?get_AMR_locale()`. ",
+               "Supported languages are ", vector_and(names(LANGUAGES_SUPPORTED), quotes = FALSE),
+               ". This note will be shown once per session.")
+    }
+    return(lang)
+  }
   coerce_language_setting(Sys.getlocale("LC_COLLATE"))
 }
 
 coerce_language_setting <- function(lang) {
-  # grepl() with ignore.case = FALSE is faster than %like%
+  # grepl() with ignore.case = FALSE is 8x faster than %like_case%
   if (grepl("^(English|en_|EN_)", lang, ignore.case = FALSE, perl = TRUE)) {
     # as first option to optimise speed
     "en"
@@ -122,6 +133,10 @@ coerce_language_setting <- function(lang) {
     "fr"
   } else if (grepl("^(Portuguese|Portugu.+s|pt_|PT_)", lang, ignore.case = FALSE, perl = TRUE)) {
     "pt"
+  } else if (grepl("^(Russian|pycc|ru_|RU_)", lang, ignore.case = FALSE, perl = TRUE)) {
+    "ru"
+  } else if (grepl("^(Swedish|Svenskt|sv_|SV_)", lang, ignore.case = FALSE, perl = TRUE)) {
+    "sv"
   } else {
     # other language -> set to English
     "en"
@@ -130,7 +145,7 @@ coerce_language_setting <- function(lang) {
 
 # translate strings based on inst/translations.tsv
 translate_AMR <- function(from,
-                          language = get_locale(), 
+                          language = get_AMR_locale(), 
                           only_unknown = FALSE,
                           only_affect_ab_names = FALSE,
                           only_affect_mo_names = FALSE) {

README.md

@@ -6,7 +6,7 @@
 [![CodeFactor](https://www.codefactor.io/repository/github/msberends/amr/badge)](https://www.codefactor.io/repository/github/msberends/amr)
 [![Codecov](https://codecov.io/gh/msberends/AMR/branch/main/graph/badge.svg)](https://codecov.io/gh/msberends/AMR?branch=main)
 
-<img src="https://msberends.github.io/AMR/works_great_on.png" align="center" height="150px" />
+<img src="https://msberends.github.io/AMR/AMR_intro.svg" align="center" height="300px" />
 
 The latest built **source package** (`AMR_latest.tar.gz`) can be found in folder [/data-raw/](https://github.com/msberends/AMR/tree/main/data-raw).
 

_pkgdown.yml

@@ -175,7 +175,7 @@ reference:
     - "`age_groups`"
     - "`age`"
     - "`availability`"
-    - "`get_locale`"
+    - "`get_AMR_locale`"
     - "`ggplot_pca`"
     - "`italicise_taxonomy`"
     - "`join`"

data-raw/_internals.R

@@ -68,7 +68,16 @@ TRANSLATIONS <- utils::read.delim(file = "data-raw/translations.tsv",
                                        quote = "")
 
 # for checking input in `language` argument in e.g. mo_*() and ab_*() functions
-LANGUAGES_SUPPORTED <- sort(c("en", colnames(TRANSLATIONS)[nchar(colnames(TRANSLATIONS)) == 2]))
+LANGUAGES_SUPPORTED <- c(Danish = "da",
+                         German = "de",
+                         English = "en",
+                         Spanish = "es",
+                         French = "fr",
+                         Italian = "it",
+                         Dutch = "nl",
+                         Portuguese = "pt",
+                         Russian = "ru",
+                         Swedish = "sv")
 
 # EXAMPLE_ISOLATES <- readRDS("data-raw/example_isolates.rds")
 

data-raw/reproduction_of_rsi_translation.R

@@ -1,3 +1,28 @@
+# ==================================================================== #
+# TITLE                                                                #
+# Antimicrobial Resistance (AMR) Data Analysis for R                   #
+#                                                                      #
+# SOURCE                                                               #
+# https://github.com/msberends/AMR                                     #
+#                                                                      #
+# LICENCE                                                              #
+# (c) 2018-2021 Berends MS, Luz CF et al.                              #
+# Developed at the University of Groningen, the Netherlands, in        #
+# collaboration with non-profit organisations Certe Medical            #
+# Diagnostics & Advice, and University Medical Center Groningen.       # 
+#                                                                      #
+# This R package is free software; you can freely use and distribute   #
+# it for both personal and commercial purposes under the terms of the  #
+# GNU General Public License version 2.0 (GNU GPL-2), as published by  #
+# the Free Software Foundation.                                        #
+# We created this package for both routine data analysis and academic  #
+# research and it was publicly released in the hope that it will be    #
+# useful, but it comes WITHOUT ANY WARRANTY OR LIABILITY.              #
+#                                                                      #
+# Visit our website for the full manual and a complete tutorial about  #
+# how to conduct AMR data analysis: https://msberends.github.io/AMR/   #
+# ==================================================================== #
+
 library(dplyr)
 library(readr)
 library(tidyr)
@@ -11,9 +36,10 @@ rsi_trans <- DRGLST1 %>%
 if (any(is.na(rsi_trans$BREAKPOINT_TYPE)) | !"Human" %in% rsi_trans$BREAKPOINT_TYPE) {
   stop("Check column BREAKPOINT_TYPE - something is WRONG!")
 }
+sort(unique(rsi_trans$GUIDELINES))
 rsi_trans <- rsi_trans %>% 
   ##### If looking for adding a specific guideline, do it here!
-  # filter(GUIDELINES == "CLSI20") %>% 
+  filter(GUIDELINES == "CLSI21") %>% 
   #####
   filter(BREAKPOINT_TYPE == "Human") %>% 
   mutate(DISK_S = ifelse(as.double(DISK_S) > 50, 50, DISK_S),
@@ -52,6 +78,8 @@ rsi_trans <- bind_rows(tbl_mic, tbl_disk) %>%
   select(-ends_with("_mic"), -ends_with("_disk"))
 
 # add extra CLSI general guidelines
+# Installed WHONET software on Windows (http://www.whonet.org/software.html),
+#    imported C:\WHONET\Codes\DRGLST.txt
 clsi_general <- readr::read_tsv("data-raw/DRGLST.txt") %>%
   filter(CLSI == "X") %>%
   select(WHON5_CODE, 

data-raw/rsi.md5

@@ -1 +1 @@
-67a83b234f25a303c7944222bea47d73
+a18718ce9e256567e82f33b7c5314413

data-raw/translations.tsv

@@ -1,269 +1,269 @@
-pattern	regular_expr	case_sensitive	affect_ab_name	affect_mo_name	de	nl	es	it	fr	pt	da
-Coagulase-negative Staphylococcus	TRUE	TRUE	FALSE	TRUE	Koagulase-negative Staphylococcus	Coagulase-negatieve Staphylococcus	Staphylococcus coagulasa negativo	Staphylococcus negativo coagulasi	Staphylococcus à coagulase négative	Staphylococcus coagulase negativo	Koagulase-negative stafylokokker
-Coagulase-positive Staphylococcus	TRUE	TRUE	FALSE	TRUE	Koagulase-positive Staphylococcus	Coagulase-positieve Staphylococcus	Staphylococcus coagulasa positivo	Staphylococcus positivo coagulasi	Staphylococcus à coagulase positif	Staphylococcus coagulase positivo	Koagulase-positive stafylokokker
-Beta-haemolytic Streptococcus	TRUE	TRUE	FALSE	TRUE	Beta-hämolytischer Streptococcus	Beta-hemolytische Streptococcus	Streptococcus Beta-hemolítico	Streptococcus Beta-emolitico	Streptococcus Bêta-hémolytique	Streptococcus Beta-hemolítico	Beta-haemolytiske streptokokker
-unknown Gram-negatives	TRUE	TRUE	FALSE	TRUE	unbekannte Gramnegativen	onbekende Gram-negatieven	Gram negativos desconocidos	Gram negativi sconosciuti	Gram négatifs inconnus	Gram negativos desconhecidos	ukendte Gram-negative
-unknown Gram-positives	TRUE	TRUE	FALSE	TRUE	unbekannte Grampositiven	onbekende Gram-positieven	Gram positivos desconocidos	Gram positivi sconosciuti	Gram positifs inconnus	Gram positivos desconhecidos	ukendte Gram-positive
-unknown fungus	TRUE	TRUE	FALSE	TRUE	unbekannter Pilze	onbekende schimmel	hongo desconocido	fungo sconosciuto	champignon inconnu	fungo desconhecido	ukendt svamp
-unknown yeast	TRUE	TRUE	FALSE	TRUE	unbekannte Hefe	onbekende gist	levadura desconocida	lievito sconosciuto	levure inconnue	levedura desconhecida	ukendt gær
-unknown name	TRUE	TRUE	FALSE	TRUE	unbekannte Name	onbekende naam	nombre desconocido	nome sconosciuto	nom inconnu	nome desconhecido	ukendt navn
-unknown kingdom	TRUE	TRUE	FALSE	TRUE	unbekanntes Reich	onbekend koninkrijk	reino desconocido	regno sconosciuto	règme inconnu	reino desconhecido	ukendt kongerige
-unknown phylum	TRUE	TRUE	FALSE	TRUE	unbekannter Stamm	onbekend fylum	filo desconocido	phylum sconosciuto	embranchement inconnu	filo desconhecido	ukendt stamme
-unknown class	TRUE	TRUE	FALSE	TRUE	unbekannte Klasse	onbekende klasse	clase desconocida	classe sconosciuta	classe inconnue	classe desconhecida	ukendt klasse
-unknown order	TRUE	TRUE	FALSE	TRUE	unbekannte Ordnung	onbekende orde	orden desconocido	ordine sconosciuto	ordre inconnu	ordem desconhecido	ukendt orden
-unknown family	TRUE	TRUE	FALSE	TRUE	unbekannte Familie	onbekende familie	familia desconocida	famiglia sconosciuta	famille inconnue	família desconhecida	ukendt familie
-unknown genus	TRUE	TRUE	FALSE	TRUE	unbekannte Gattung	onbekend geslacht	género desconocido	genere sconosciuto	genre inconnu	gênero desconhecido	ukendt slægt
-unknown species	TRUE	TRUE	FALSE	TRUE	unbekannte Art	onbekende soort	especie desconocida	specie sconosciute	espèce inconnue	espécies desconhecida	ukendt art
-unknown subspecies	TRUE	TRUE	FALSE	TRUE	unbekannte Unterart	onbekende ondersoort	subespecie desconocida	sottospecie sconosciute	sous-espèce inconnue	subespécies desconhecida	ukendt underart
-unknown rank	TRUE	TRUE	FALSE	TRUE	unbekannter Rang	onbekende rang	rango desconocido	grado sconosciuto	rang inconnu	classificação desconhecido	ukendt rang
- group 	TRUE	TRUE	FALSE	TRUE	 Gruppe 	 groep 	 grupo 	 gruppo 	 groupe 	 grupo 	 gruppe 
-CoNS	FALSE	TRUE	FALSE	TRUE	KNS	CNS	SCN				
-CoPS	FALSE	TRUE	FALSE	TRUE	KPS	CPS	SCP				
-Gram-negative	TRUE	TRUE	FALSE	FALSE	Gramnegativ	Gram-negatief	Gram negativo	Gram negativo	Gram négatif	Gram negativo	Gram-negativ
-Gram-positive	TRUE	TRUE	FALSE	FALSE	Grampositiv	Gram-positief	Gram positivo	Gram positivo	Gram positif	Gram positivo	Gram-positiv
-^Bacteria$	TRUE	TRUE	FALSE	FALSE	Bakterien	Bacteriën	Bacterias	Batteri	Bactéries	Bactérias	Bakterier
-^Fungi$	TRUE	TRUE	FALSE	FALSE	Pilze	Schimmels	Hongos	Funghi	Champignons	Fungos	Støbeforme
-^Yeasts$	TRUE	TRUE	FALSE	FALSE	Hefen	Gisten	Levaduras	Lieviti	Levures	Leveduras	Gær
-^Protozoa$	TRUE	TRUE	FALSE	FALSE	Protozoen	Protozoën	Protozoarios	Protozoi	Protozoaires	Protozoários	Protozoer
-biogroup	TRUE	TRUE	FALSE	FALSE	Biogruppe	biogroep	biogrupo	biogruppo	biogroupe	biogrupo	biogruppe
-biotype	TRUE	TRUE	FALSE	FALSE	Biotyp		biotipo	biotipo		biótipo	
-vegetative	TRUE	TRUE	FALSE	FALSE	vegetativ	vegetatief	vegetativo	vegetativo	végétatif	vegetativo	
-([([ ]*?)group	TRUE	TRUE	FALSE	FALSE	\\1Gruppe	\\1groep	\\1grupo	\\1gruppo	\\1groupe	\\1grupo	
-([([ ]*?)Group	TRUE	TRUE	FALSE	FALSE	\\1Gruppe	\\1Groep	\\1Grupo	\\1Gruppo	\\1Groupe	\\1Grupo	
-no .*growth	TRUE	FALSE	FALSE	FALSE	keine? .*wachstum	geen .*groei	no .*crecimientonon	sem .*crescimento	pas .*croissance	sem .*crescimento	
-no|not	TRUE	FALSE	FALSE	FALSE	keine?	geen|niet	no|sin	sem	non	sem	
-Intermediate	TRUE	FALSE	FALSE	FALSE	Mittlere	Intermediair	Intermedio				
-Susceptible, incr. exp.	FALSE	TRUE	FALSE	FALSE	Empfindlich, erh Belastung	Gevoelig, hoge dosis					
-susceptible, incr. exp.	FALSE	TRUE	FALSE	FALSE	empfindlich, erh Belastung	gevoelig, hoge dosis					
-Susceptible	TRUE	FALSE	FALSE	FALSE	Empfindlich	Gevoelig	Susceptible				
-Incr. exposure	TRUE	FALSE	FALSE	FALSE	Empfindlich, erh Belastung	'Incr. exposure'	'Incr. exposure'				
-Resistant	TRUE	FALSE	FALSE	FALSE	Resistent	Resistent	Resistente				
-antibiotic	TRUE	TRUE	FALSE	FALSE	Antibiotikum	antibioticum	antibiótico	antibiotico	antibiotique	antibiótico	antibiotikum
-Antibiotic	TRUE	TRUE	FALSE	FALSE	Antibiotikum	Antibioticum	Antibiótico	Antibiotico	Antibiotique	Antibiótico	Antibiotikum
-Drug	TRUE	TRUE	FALSE	FALSE	Medikament	Middel	Fármaco	Droga	Médicament	Droga	Lægemiddel
-drug	TRUE	TRUE	FALSE	FALSE	Medikament	middel	fármaco	droga	médicament	droga	lægemiddel
-Frequency	FALSE	TRUE	FALSE	FALSE	Zahl	Aantal	Frecuencia	Frequenza	Fréquence	Frequência	Frekvens
-Minimum Inhibitory Concentration (mg/L)	FALSE	FALSE	FALSE	FALSE	Minimale Hemm-Konzentration (mg/L)	Minimale inhiberende concentratie (mg/L)	Concentración mínima inhibitoria (mg/L)	Concentrazione minima inibitoria (mg/L)	Concentration minimale inhibitrice (mg/L)	Concentração Inibitória Mínima (mg/L)	Mindste hæmmende koncentration (mg/L)
-Disk diffusion diameter (mm)	FALSE	FALSE	FALSE	FALSE	Durchmesser der Scheibenzone (mm)	Diameter diskzone (mm)	Diámetro de difusión en disco (mm)	Diametro di diffusione del disco (mm)	Diamètre de diffusion en disque (mm)	Diâmetro de difusão do disco (mm)	Diskdiffusionsdiameter (mm)
-Antimicrobial Interpretation	FALSE	FALSE	FALSE	FALSE	Antimikrobielle Auswertung	Antimicrobiële interpretatie	Interpretación antimicrobiana	Interpretazione antimicrobica	Interprétation antimicrobienne	Interpretação Antimicrobiana	Antimikrobiel fortolkning
-4-aminosalicylic acid	FALSE	TRUE	TRUE	FALSE	4-Aminosalicylsäure	4-aminosalicylzuur	Ácido 4-aminosalicílico	Acido 4-aminosalicilico	Acide 4-aminosalicylique	Ácido 4-aminosalicílico	4-aminosalicylsyre
-Adefovir dipivoxil	FALSE	TRUE	TRUE	FALSE	Adefovir Dipivoxil	Adefovir	Adefovir dipivoxil	Adefovir dipivoxil	Adéfovir dipivoxil	Adefovir dipivoxil	Adefovir dipivoxil
-Aldesulfone sodium	FALSE	TRUE	TRUE	FALSE	Aldesulfon-Natrium	Aldesulfon	Aldesulfona sódica	Aldesulfone sodio	Aldésulfone sodique	Aldesulfona de sódio	Aldesulfon-natrium
-Amikacin	FALSE	TRUE	TRUE	FALSE	Amikacin	Amikacine	Amikacina	Amikacin	Amikacine	Amikacin	Amikacin
-Amoxicillin	FALSE	TRUE	TRUE	FALSE	Amoxicillin	Amoxicilline	Amoxicilina	Amoxicillina	Amoxicilline	Amoxicilina	Amoxicillin
-Amoxicillin/beta-lactamase inhibitor	FALSE	TRUE	TRUE	FALSE	Amoxicillin/Beta-Lactamase-Hemmer	Amoxicilline/enzymremmer	Amoxicilina/inhib. de la beta-lactamasa	Amoxicillina/inib. d. beta-lattamasi	Amoxicilline/inhib. de bêta-lactamase	Amoxicilina/inibid. da beta-lactamase	Amoxicillin/beta-lactamasehæmmer
-Amphotericin B	FALSE	TRUE	TRUE	FALSE	Amphotericin B	Amfotericine B	Anfotericina B	Amfotericina B	Amphotéricine B	Anfotericina B	Amfotericin B
-Ampicillin	FALSE	TRUE	TRUE	FALSE	Ampicillin	Ampicilline	Ampicilina	Ampicillina	Ampicilline	Ampicilina	Ampicillin
-Ampicillin/beta-lactamase inhibitor	FALSE	TRUE	TRUE	FALSE	Ampicillin/Beta-Laktamase-Hemmer	Ampicilline/enzymremmer	Ampicilina/inhib. de la beta-lactamasa	Ampicillina/inib. d. beta-lattamasi	Ampicilline/inhib. de bêta-lactamase	Ampicilina/inibid. da beta-lactamase	Ampicillin/beta-lactamasehæmmer
-Anidulafungin	FALSE	TRUE	TRUE	FALSE	Anidulafungin	Anidulafungine	Anidulafungina	Anidulafungin	Anidulafungine	Anidulafungin	Anidulafungin
-Azidocillin	FALSE	TRUE	TRUE	FALSE	Azidocillin	Azidocilline	Azidocilina	Azidocillina	Azidocilline	Azidocillin	Azidocillin
-Azithromycin	FALSE	TRUE	TRUE	FALSE	Azithromycin	Azitromycine	Azitromicina	Azitromicina	Azithromycine	Azitromicina	Azithromycin
-Azlocillin	FALSE	TRUE	TRUE	FALSE	Azlocillin	Azlocilline	Azlocilina	Azlocillina	Azlocilline	Azlocillin	Azlocillin
-Bacampicillin	FALSE	TRUE	TRUE	FALSE	Bacampicillin	Bacampicilline	Bacampicilina	Bacampicillina	Bacampicilline	Bacampicilina	Bacampicillin
-Bacitracin	FALSE	TRUE	TRUE	FALSE	Bacitracin	Bacitracine	Bacitracina	Bacitracina	Bacitracine	Bacitracin	Bacitracin
-Benzathine benzylpenicillin	FALSE	TRUE	TRUE	FALSE	Benzathin-Benzylpenicillin	Benzylpenicillinebenzathine	Bencilpenicilina benzatínica	Benzatina benzilpenicillina	Benzathine benzylpénicilline	Benzatina benzatina benzilpenicilina	Benzathinbenzylpenicillin
-Benzathine phenoxymethylpenicillin	FALSE	TRUE	TRUE	FALSE	Benzathin-Phenoxymethylpenicillin	Fenoxymethylpenicillinebenzathine	Fenoximetilpenicilina benzatínica	Benzatina fenossimetilpenicillina	Phénoxyméthylpénicilline benzathine	Benzatina fenoximetilpenicilina	Benzathinfenoxymethylpenicillin
-Benzylpenicillin	FALSE	TRUE	TRUE	FALSE	Benzylpenicillin	Benzylpenicilline	Bencilpenicilina	Benzilpenicillina	Benzylpénicilline	Benzilpenicilina	Benzylpenicillin
-Calcium aminosalicylate	FALSE	TRUE	TRUE	FALSE	Kalzium-Aminosalicylat	Aminosalicylzuur	Aminosalicilato de calcio	Calcio aminosalicilato	Aminosalicylate de calcium	Aminosalicilato de cálcio	Calciumaminosalicylat
-Capreomycin	FALSE	TRUE	TRUE	FALSE	Capreomycin	Capreomycine	Capreomicina	Capreomicina	Capréomycine	Capreomicina	Capreomycin
-Carbenicillin	FALSE	TRUE	TRUE	FALSE	Carbenicillin	Carbenicilline	Carbenicilina	Carbenicillina	Carbénicilline	Carbenicilina	Carbenicillin
-Carindacillin	FALSE	TRUE	TRUE	FALSE	Carindacillin	Carindacilline	Carindacilina	Carindacillina	Carindacilline	Carindacillin	Carindacillin
-Caspofungin	FALSE	TRUE	TRUE	FALSE	Caspofungin	Caspofungine	Caspofungina	Caspofungin	Caspofungine	Caspofungin	Caspofungin
-Ce(f|ph)acetrile	TRUE	TRUE	TRUE	FALSE	Cefacetril	Cefacetril	Cefacetrilo	Cefacetrile	Céphacétrile	Cephacetrile	Cephacetril
-Ce(f|ph)alotin	TRUE	TRUE	TRUE	FALSE	Cefalotin	Cefalotine	Cefalotina	Cefalotina	Céphalotine	Cefalotina	Cephalotin
-Ce(f|ph)amandole	TRUE	TRUE	TRUE	FALSE	Cefamandol	Cefamandol	Cefamandole	Cephamandole	Céphamandole	Cephamandole	Cephamandol
-Ce(f|ph)apirin	TRUE	TRUE	TRUE	FALSE	Cefapirin	Cefapirine	Cefapirina	Cefapirina	Céphapirine	Cephapirin	Cephapirin
-Ce(f|ph)azedone	TRUE	TRUE	TRUE	FALSE	Cefazedon	Cefazedon	Cefazedona	Cefazedone	Céphazédone	Cephazedone	Cephazedon
-Ce(f|ph)azolin	TRUE	TRUE	TRUE	FALSE	Cefazolin	Cefazoline	Cefazolina	Cephazolin	Céphazoline	Cephazolin	Cephazolin
-Ce(f|ph)alothin	TRUE	TRUE	TRUE	FALSE	Cefalothin	Cefalotine	Cefalotina	Cefalotina	Céphalothine	Cephalothin	Cephalothin
-Ce(f|ph)alexin	TRUE	TRUE	TRUE	FALSE	Cefalexin	Cefalexine	Cefalexina	Cephalexin	Céphalexine	Cephalexin	Cephalexin
-Ce(f|ph)epime	TRUE	TRUE	TRUE	FALSE	Cefepim	Cefepim	Cefepime	Cephepime	Céphépime	Cephepime	Cephepime
-Ce(f|ph)ixime	TRUE	TRUE	TRUE	FALSE	Cefixim	Cefixim	Cefixima	Cephixime	Céphixime	Cephixime	Cephixim
-Ce(f|ph)menoxime	TRUE	TRUE	TRUE	FALSE	Cefmenoxim	Cefmenoxim	Cefmenoxima	Cephmenoxime	Céphénoxime	Cephmenoxime	Cephmenoxim
-Ce(f|ph)metazole	TRUE	TRUE	TRUE	FALSE	Cefmetazol	Cefmetazol	Cefmetazol	Cephmetazole	Céphmétazole	Cefmetazole	Cephmetazol
-Ce(f|ph)odizime	TRUE	TRUE	TRUE	FALSE	Cefodizim	Cefodizim	Cefodixima	Cephodizime	Céphodizime	Cephodizime	Cephodizim
-Ce(f|ph)onicid	TRUE	TRUE	TRUE	FALSE	Cefonicid	Cefonicide	Cefonicida	Cephonicid	Céphonicide	Cefonicid	Cephonicid
-Ce(f|ph)operazone	TRUE	TRUE	TRUE	FALSE	Cefoperazon	Cefoperazon	Cefoperazona	Cephoperazone	Céphopérazone	Cephoperazone	Cephoperazon
-Ce(f|ph)operazone/beta-lactamase inhibitor	TRUE	TRUE	TRUE	FALSE	Cefoperazon/Beta-Lactamase-Hemmer	Cefoperazon/enzymremmer	Cefoperazona/inhib. de betalactamasas	Cephoperazone/inib. d. beta-lattamasi	Céphopérazone/inhib. de bêta-lactamase	Cephoperazona/inibid. da beta-lactamase	Cephoperazon/beta-lactamasehæmmer
-Ce(f|ph)otaxime	TRUE	TRUE	TRUE	FALSE	Cefotaxim	Cefotaxim	Cefotaxima	Cephotaxime	Céphotaxime	Cephotaxime	Cephotaxim
-Ce(f|ph)oxitin	TRUE	TRUE	TRUE	FALSE	Cefoxitin	Cefoxitine	Cefoxitina	Cefossitina	Céphoxitine	Cephoxitin	Cephoxitin
-Ce(f|ph)pirome	TRUE	TRUE	TRUE	FALSE	Cefpirom	Cefpirom	Cephpirome	Cephpirome	Céphpirome	Cefpirome	Cephpirom
-Ce(f|ph)podoxime	TRUE	TRUE	TRUE	FALSE	Cefpodoxim	Cefpodoxim	Cefpodoxima	Cephpodoxime	Céphpodoxime	Cephpodoxime	Cephpodoxim
-Ce(f|ph)radine	TRUE	TRUE	TRUE	FALSE	Cefradin	Cefradine	Cefradina	Cefradina	Céphradine	Cephradine	Cephradin
-Ce(f|ph)sulodin	TRUE	TRUE	TRUE	FALSE	Cefsulodin	Cefsulodine	Cefsulodina	Cephsulodin	Céphsulodine	Cephsulodin	Cephsulodin
-Ce(f|ph)tazidime	TRUE	TRUE	TRUE	FALSE	Ceftazidim	Ceftazidim	Ceftazidima	Ceftazidima	Céphtazidime	Ceftazidima	Cephtazidim
-Ce(f|ph)tezole	TRUE	TRUE	TRUE	FALSE	Ceftezol	Ceftezol	Ceftezol	Cephtezole	Céphtézole	Ceftezole	Cephtezol
-Ce(f|ph)tizoxime	TRUE	TRUE	TRUE	FALSE	Ceftizoxim	Ceftizoxim	Ceftizoxima	Cephtizoxime	Céphtizoxime	Cephtizoxime	Cephtizoxim
-Ce(f|ph)triaxone	TRUE	TRUE	TRUE	FALSE	Ceftriaxon	Ceftriaxon	Ceftriaxona	Ceftriaxone	Céphtriaxone	Cefhtriaxone	Cephtriaxon
-Ce(f|ph)uroxime	TRUE	TRUE	TRUE	FALSE	Cefuroxim	Cefuroxim	Cefuroxima	Cefuroxima	Céphuroxime	Cephuroxime	Cephuroxim
-Ce(f|ph)uroxime/metronidazole	TRUE	TRUE	TRUE	FALSE	Cefuroxim/Metronidazol	Cefuroxim/andere antibacteriele middelen	Cefuroxima/metronidazol	Cefuroxima/metronidazolo	Céphuroxime/métronidazole	Cephuroxime/metronidazol	Cefuroxim/metronidazol
-Chloramphenicol	FALSE	TRUE	TRUE	FALSE	Chloramphenicol	Chlooramfenicol	Cloranfenicol	Cloramfenicolo	Chloramphénicol	Cloranfenicol	Kloramfenicol
-Chlortetracycline	FALSE	TRUE	TRUE	FALSE	Chlortetracyclin	Chloortetracycline	Clortetraciclina	Clorotetraciclina	Chlortétracycline	Chlortetracycline	Chlortetracyclin
-Cinoxacin	FALSE	TRUE	TRUE	FALSE	Cinoxacin	Cinoxacine	Cinoxacina	Cinoxacina	Cinoxacine	Cinoxacin	Cinoxacin
-Ciprofloxacin	FALSE	TRUE	TRUE	FALSE	Ciprofloxacin	Ciprofloxacine	Ciprofloxacina	Ciprofloxacina	Ciprofloxacine	Ciprofloxacin	Ciprofloxacin
-Clarithromycin	FALSE	TRUE	TRUE	FALSE	Clarithromycin	Claritromycine	Claritromicina	Claritromicina	Clarithromycine	Claritromicina	Clarithromycin
-Clavulanic acid	FALSE	TRUE	TRUE	FALSE	Clavulansäure	Clavulaanzuur	Ácido clavulánico	Acido clavulanico	Acide clavulanique	Ácido clavulânico	Clavulansyre
-clavulanic acid	FALSE	TRUE	TRUE	FALSE	Clavulansäure	clavulaanzuur	ácido clavulánico	acido clavulanico	acide clavulanique	ácido clavulânico	clavulansyre
-Clindamycin	FALSE	TRUE	TRUE	FALSE	Clindamycin	Clindamycine	Clindamicina	Clindamicina	Clindamycine	Clindamicina	Clindamycin
-Clometocillin	FALSE	TRUE	TRUE	FALSE	Clometocillin	Clometocilline	Clometocilina	Clometocillina	Clométocilline	Clometocillin	Clometocillin
-Clotrimazole	FALSE	TRUE	TRUE	FALSE	Clotrimazol	Clotrimazol	Clotrimazol	Clotrimazolo	Clotrimazole	Clotrimazole	Clotrimazol
-Cloxacillin	FALSE	TRUE	TRUE	FALSE	Cloxacillin	Cloxacilline	Cloxacilina	Cloxacillina	Cloxacilline	Cloxacillin	Cloxacillin
-Colistin	FALSE	TRUE	TRUE	FALSE	Colistin	Colistine	Colistina	Colistina	Colistine	Colistin	Colistin
-Dapsone	FALSE	TRUE	TRUE	FALSE	Dapson	Dapson	Dapsona	Dapsone	Dapsone	Dapsone	Dapson
-Daptomycin	FALSE	TRUE	TRUE	FALSE	Daptomycin	Daptomycine	Daptomicina	Daptomicina	Daptomycine	Daptomicina	Daptomycin
-Dibekacin	FALSE	TRUE	TRUE	FALSE	Dibekacin	Dibekacine	Dibekacina	Dibekacin	Dibekacine	Dibekacin	Dibekacin
-Dicloxacillin	FALSE	TRUE	TRUE	FALSE	Dicloxacillin	Dicloxacilline	Dicloxacilina	Dicloxacillina	Dicloxacilline	Dicloxacilina	Dicloxacillin
-Dirithromycin	FALSE	TRUE	TRUE	FALSE	Dirithromycin	Diritromycine	Diritromicina	Diritromicina	Dirithromycine	Diritromicina	Dirithromycin
-Econazole	FALSE	TRUE	TRUE	FALSE	Econazol	Econazol	Econazol	Econazolo	Econazole	Econazole	Econazol
-Enoxacin	FALSE	TRUE	TRUE	FALSE	Enoxacin	Enoxacine	Enoxacina	Enoxacina	Enoxacine	Enoxacin	Enoxacin
-Epicillin	FALSE	TRUE	TRUE	FALSE	Epicillin	Epicilline	Epicilina	Epicillina	Epicilline	Epicilina	Epicillin
-Erythromycin	FALSE	TRUE	TRUE	FALSE	Erythromycin	Erytromycine	Eritromicina	Eritromicina	Erythromycine	Eritromicina	Erythromycin
-Ethambutol/isoniazid	FALSE	TRUE	TRUE	FALSE	Ethambutol/Isoniazid	Ethambutol/isoniazide	Etambutol/isoniazida	Etambutolo/isoniazide	Ethambutol/isoniazide	Ethambutol/isoniazid	Ethambutol/isoniazid
-Fleroxacin	FALSE	TRUE	TRUE	FALSE	Fleroxacin	Fleroxacine	Fleroxacina	Fleroxacina	Fléroxacine	Fleroxacina	Fleroxacin
-Flucloxacillin	FALSE	TRUE	TRUE	FALSE	Flucloxacillin	Flucloxacilline	Flucloxacilina	Flucloxacillina	Flucloxacilline	Flucloxacillin	Flucloxacillin
-Fluconazole	FALSE	TRUE	TRUE	FALSE	Fluconazol	Fluconazol	Fluconazol	Fluconazolo	Fluconazole	Fluconazole	Fluconazol
-Flucytosine	FALSE	TRUE	TRUE	FALSE	Flucytosin	Fluorocytosine	Flucitosina	Flucytosine	Flucytosine	Flucytosine	Flucytosin
-Flurithromycin	FALSE	TRUE	TRUE	FALSE	Flurithromycin	Fluritromycine	Fluritromicina	Fluritromicina	Flurithromycine	Fluritromicina	Flurithromycin
-Fosfomycin	FALSE	TRUE	TRUE	FALSE	Fosfomycin	Fosfomycine	Fosfomicina	Fosfomicina	Fosfomycine	Fosfomycin	Fosfomycin
-Fusidic acid	FALSE	TRUE	TRUE	FALSE	Fusidinsäure	Fusidinezuur	Ácido fusídico	Acido fusidico	Acide fusidique	Ácido fusídico	Fusidinsyre
-Gatifloxacin	FALSE	TRUE	TRUE	FALSE	Gatifloxacin	Gatifloxacine	Gatifloxacina	Gatifloxacina	Gatifloxacine	Gatifloxacin	Gatifloxacin
-Gemifloxacin	FALSE	TRUE	TRUE	FALSE	Gemifloxacin	Gemifloxacine	Gemifloxacina	Gemifloxacina	Gemifloxacine	Gemifloxacin	Gemifloxacin
-Gentamicin	FALSE	TRUE	TRUE	FALSE	Gentamicin	Gentamicine	Gentamicina	Gentamicina	Gentamicine	Gentamicina	Gentamicin
-Grepafloxacin	FALSE	TRUE	TRUE	FALSE	Grepafloxacin	Grepafloxacine	Grepafloxacina	Grepafloxacina	Grepafloxacine	Grepafloxacin	Grepafloxacin
-Hachimycin	FALSE	TRUE	TRUE	FALSE	Hachimycin	Hachimycine	Hachimycin	Hachimycin	Hachimycine	Hachimycin	Hachimycin
-Hetacillin	FALSE	TRUE	TRUE	FALSE	Hetacillin	Hetacilline	Hetacilina	Hetacillin	Hétacilline	Hetacillin	Hetacillin
-Imipenem/cilastatin	FALSE	TRUE	TRUE	FALSE	Imipenem/Cilastatin	Imipenem/enzymremmer	Imipenem/cilastatina	Imipenem/cilastatina	Imipénème/cilastatine	Imipenem/coteltelatina	Imipenem/cilastatin
-Inosine pranobex	FALSE	TRUE	TRUE	FALSE	Inosin-Pranobex	Inosiplex	Inosina pranobex	Inosina pranobex	Inosine pranobex	Pranobex inosine	Inosin pranobex
-Isepamicin	FALSE	TRUE	TRUE	FALSE	Isepamicin	Isepamicine	Isepamicina	Isepamicina	Isepamicine	Isepamicina	Isepamicin
-Isoconazole	FALSE	TRUE	TRUE	FALSE	Isoconazol	Isoconazol	Isoconazol	Isoconazolo	Isoconazole	Isoconazole	Isoconazol
-Isoniazid	FALSE	TRUE	TRUE	FALSE	Isoniazid	Isoniazide	Isoniazida	Isoniazide	Isoniazide	Isoniazid	Isoniazid
-Itraconazole	FALSE	TRUE	TRUE	FALSE	Itraconazol	Itraconazol	Itraconazol	Itraconazolo	Itraconazole	Itraconazole	Itraconazol
-Josamycin	FALSE	TRUE	TRUE	FALSE	Josamycin	Josamycine	Josamicina	Josamicina	Josamycine	Josamycin	Josamycin
-Kanamycin	FALSE	TRUE	TRUE	FALSE	Kanamycin	Kanamycine	Kanamicina	Kanamicina	Kanamycine	Kanamycin	Kanamycin
-Ketoconazole	FALSE	TRUE	TRUE	FALSE	Ketoconazol	Ketoconazol	Ketoconazol	Ketoconazolo	Kétoconazole	Ketoconazole	Ketoconazol
-Levofloxacin	FALSE	TRUE	TRUE	FALSE	Levofloxacin	Levofloxacine	Levofloxacina	Levofloxacina	Lévofloxacine	Levofloxacin	Levofloxacin
-Lincomycin	FALSE	TRUE	TRUE	FALSE	Lincomycin	Lincomycine	Lincomicina	Lincomicina	Lincomycine	Lincomycin	Lincomycin
-Lomefloxacin	FALSE	TRUE	TRUE	FALSE	Lomefloxacin	Lomefloxacine	Lomefloxacina	Lomefloxacina	Loméfloxacine	Lomefloxacin	Lomefloxacin
-Lysozyme	FALSE	TRUE	TRUE	FALSE	Lysozym	Lysozym	Lisozima	Lisozima	Lysozyme	Lysozyme	Lysozym
-Mandelic acid	FALSE	TRUE	TRUE	FALSE	Mandelsäure	Amandelzuur	Ácido mandélico	Acido mandelico	Acide mandélique	Ácido mandélico	Mandelinsyre
-Metampicillin	FALSE	TRUE	TRUE	FALSE	Metampicillin	Metampicilline	Metampicilina	Metampicillina	Métampicilline	Metampicilina	Metampicillin
-Meticillin	FALSE	TRUE	TRUE	FALSE	Meticillin	Meticilline	Meticilina	Meticillina	Méticilline	Meticillin	Meticillin
-Metisazone	FALSE	TRUE	TRUE	FALSE	Metisazon	Metisazon	Metisazona	Metisazone	Métisazone	Metisazone	Metisazon
-Metronidazole	FALSE	TRUE	TRUE	FALSE	Metronidazol	Metronidazol	Metronidazol	Metronidazolo	Métronidazole	Metronidazol	Metronidazol
-Mezlocillin	FALSE	TRUE	TRUE	FALSE	Mezlocillin	Mezlocilline	Mezlocilina	Mezlocillina	Mezlocilline	Mezlocillin	Mezlocillin
-Micafungin	FALSE	TRUE	TRUE	FALSE	Micafungin	Micafungine	Micafungina	Micafungin	Micafungine	Micafungin	Micafungin
-Miconazole	FALSE	TRUE	TRUE	FALSE	Miconazol	Miconazol	Miconazol	Miconazolo	Miconazole	Miconazole	Miconazol
-Midecamycin	FALSE	TRUE	TRUE	FALSE	Midecamycin	Midecamycine	Midecamicina	Midecamicina	Midecamycine	Midecamycin	Midecamycin
-Miocamycin	FALSE	TRUE	TRUE	FALSE	Miocamycin	Miocamycine	Miocamycin	Miocamicina	Miocamycine	Miocamicina	Miocamycin
-Moxifloxacin	FALSE	TRUE	TRUE	FALSE	Moxifloxacin	Moxifloxacine	Moxifloxacina	Moxifloxacin	Moxifloxacine	Moxifloxacina	Moxifloxacin
-Mupirocin	FALSE	TRUE	TRUE	FALSE	Mupirocin	Mupirocine	Mupirocina	Mupirocina	Mupirocine	Mupirocina	Mupirocin
-Nalidixic acid	FALSE	TRUE	TRUE	FALSE	Nalidixinsäure	Nalidixinezuur	Ácido nalidíxico	Acido nalidixico	Acide nalidixique	Ácido nalidíxico	Nalidixinsyre
-Neomycin	FALSE	TRUE	TRUE	FALSE	Neomycin	Neomycine	Neomicina	Neomicina	Néomycine	Neomicina	Neomycin
-Netilmicin	FALSE	TRUE	TRUE	FALSE	Netilmicin	Netilmicine	Netilmicina	Netilmicin	Netilmicine	Netilmicin	Netilmicin
-Nitrofurantoin	FALSE	TRUE	TRUE	FALSE	Nitrofurantoin	Nitrofurantoine	Nitrofurantoína	Nitrofurantoina	Nitrofurantoïne	Nitrofurantoína	Nitrofurantoin
-Norfloxacin	FALSE	TRUE	TRUE	FALSE	Norfloxacin	Norfloxacine	Norfloxacina	Norfloxacina	Norfloxacine	Norfloxacin	Norfloxacin
-Novobiocin	FALSE	TRUE	TRUE	FALSE	Novobiocin	Novobiocine	Novobiocina	Novobiocin	Novobiocine	Novobiocin	Novobiocin
-Nystatin	FALSE	TRUE	TRUE	FALSE	Nystatin	Nystatine	Nistatina	Nystatin	Nystatine	Nystatin	Nystatin
-Ofloxacin	FALSE	TRUE	TRUE	FALSE	Ofloxacin	Ofloxacine	Ofloxacina	Ofloxacin	Ofloxacine	Ofloxacin	Ofloxacin
-Oleandomycin	FALSE	TRUE	TRUE	FALSE	Oleandomycin	Oleandomycine	Oleandomicina	Oleandomicina	Oleandomycine	Oleandomicina	Oleandomycin
-Ornidazole	FALSE	TRUE	TRUE	FALSE	Ornidazol	Ornidazol	Ornidazol	Ornidazolo	Ornidazole	Ornidazole	Ornidazol
-Oxacillin	FALSE	TRUE	TRUE	FALSE	Oxacillin	Oxacilline	Oxacilina	Oxacillina	Oxacilline	Oxacillin	Oxacillin
-Oxolinic acid	FALSE	TRUE	TRUE	FALSE	Oxolinsäure	Oxolinezuur	Ácido oxolínico	Acido ossolinico	Acide oxolinique	Ácido oxolínico	Oxolinsyre
-Oxytetracycline	FALSE	TRUE	TRUE	FALSE	Oxytetracyclin	Oxytetracycline	Oxitetraciclina	Ossitetraciclina	Oxytétracycline	Oxitetraciclina	Oxytetracyclin
-Pazufloxacin	FALSE	TRUE	TRUE	FALSE	Pazufloxacin	Pazufloxacine	Pazufloxacina	Pazufloxacin	Pazufloxacine	Pazufloxacin	Pazufloxacin
-Pefloxacin	FALSE	TRUE	TRUE	FALSE	Pefloxacin	Pefloxacine	Pefloxacina	Pefloxacina	Péfloxacine	Pefloxacin	Pefloxacin
-Penamecillin	FALSE	TRUE	TRUE	FALSE	Penamecillin	Penamecilline	Penamecilina	Penamecillina	Pénamécilline	Penamecilina	Penamecillin
-Penicillin	FALSE	TRUE	TRUE	FALSE	Penicillin	Penicilline	Penicilina	Penicillina	Pénicilline	Penicilina	Penicillin
-Pheneticillin	FALSE	TRUE	TRUE	FALSE	Pheneticillin	Feneticilline	Feneticilina	Feneticillina	Phénéticilline	Pheneticillin	Pheneticillin
-Phenoxymethylpenicillin	FALSE	TRUE	TRUE	FALSE	Phenoxymethylpenicillin	Fenoxymethylpenicilline	Fenoximetilpenicilina	Fenossimetilpenicillina	Phénoxyméthylpénicilline	Fenoximetilpenicilina	Phenoxymethylpenicillin
-Pipemidic acid	FALSE	TRUE	TRUE	FALSE	Pipemidinsäure	Pipemidinezuur	Ácido pipemídico	Acido pipemidico	Acide pipémidique	Ácido pipemídico	Pipemidinsyre
-Piperacillin	FALSE	TRUE	TRUE	FALSE	Piperacillin	Piperacilline	Piperacilina	Piperacillina	Pipéracilline	Piperacilina	Piperacillin
-Piperacillin/beta-lactamase inhibitor	FALSE	TRUE	TRUE	FALSE	Piperacillin/Beta-Lactamase-Hemmer	Piperacilline/enzymremmer	Piperacilina/inhib. de la beta-lactamasa	Piperacillina/inib. d. beta-lattamasi	Pipéracilline/inhib. de bêta-lactamase	Piperacilina/inibid. da beta-lactamase	Piperacillin/beta-lactamasehæmmer
-Piromidic acid	FALSE	TRUE	TRUE	FALSE	Piromidinsäure	Piromidinezuur	Ácido piromídico	Acido piromidico	Acide piromidique	Ácido piromídico	Piromidinsyre
-Pivampicillin	FALSE	TRUE	TRUE	FALSE	Pivampicillin	Pivampicilline	Pivampicilina	Pivampicillina	Pivampicilline	Pivampicilina	Pivampicillin
-Polymyxin B	FALSE	TRUE	TRUE	FALSE	Polymyxin B	Polymyxine B	Polimixina B	Polimixina B	Polymyxine B	Polimixina B	Polymyxin B
-Posaconazole	FALSE	TRUE	TRUE	FALSE	Posaconazol	Posaconazol	Posaconazol	Posaconazolo	Posaconazole	Posaconazole	Posaconazol
-Pristinamycin	FALSE	TRUE	TRUE	FALSE	Pristinamycin	Pristinamycine	Pristinamicina	Pristinamicina	Pristinamycine	Pristinamicina	Pristinamycin
-Procaine benzylpenicillin	FALSE	TRUE	TRUE	FALSE	Procain-Benzylpenicillin	Benzylpenicillineprocaine	Bencilpenicilina procaína	Procaina benzilpenicillina	Procaïne benzylpénicilline	Procaína benzilpenicilina	Prokainbenzylpenicillin
-Propicillin	FALSE	TRUE	TRUE	FALSE	Propicillin	Propicilline	Propicilina	Propicillina	Propicilline	Propicilina	Propicillin
-Prulifloxacin	FALSE	TRUE	TRUE	FALSE	Prulifloxacin	Prulifloxacine	Prulifloxacina	Prulifloxacina	Prulifloxacine	Prulifloxacina	Prulifloxacin
-Quinupristin/dalfopristin	FALSE	TRUE	TRUE	FALSE	Quinupristin/Dalfopristin	Quinupristine/dalfopristine	Quinupristina/dalfopristina	Quinupristina/dalfopristina	Quinupristine/dalfopristine	Quinupristin/dalfopristin	Quinupristin/dalfopristin
-Ribostamycin	FALSE	TRUE	TRUE	FALSE	Ribostamycin	Ribostamycine	Ribostamicina	Ribostamicina	Ribostamycine	Ribostamicina	Ribostamycin
-Rifabutin	FALSE	TRUE	TRUE	FALSE	Rifabutin	Rifabutine	Rifabutina	Rifabutina	Rifabutine	Rifabutin	Rifabutin
-Rifampicin	FALSE	TRUE	TRUE	FALSE	Rifampicin	Rifampicine	Rifampicina	Rifampicina	Rifampicine	Rifampicina	Rifampicin
-Rifampicin/pyrazinamide/ethambutol/isoniazid	FALSE	TRUE	TRUE	FALSE	Rifampicin/Pyrazinamid/Ethambutol/Isoniazid	Rifampicine/pyrazinamide/ethambutol/isoniazide	Rifampicina/pirazinamida/etambutol/isoniazida	Rifampicina/pirazinamide/etambutolo/isoniazide	Rifampicine/pyrazinamide/éthambutol/isoniazide	Rifampicina/pirazinamida/etambutol/isoniazida	Rifampicin/pyrazinamid/ethambutol/isoniazid
-Rifampicin/pyrazinamide/isoniazid	FALSE	TRUE	TRUE	FALSE	Rifampicin/Pyrazinamid/Isoniazid	Rifampicine/pyrazinamide/isoniazide	Rifampicina/pirazinamida/isoniazida	Rifampicina/pirazinamide/isoniazide	Rifampicine/pyrazinamide/isoniazide	Rifampicina/pirazinamida/isoniazida	Rifampicin/pyrazinamid/isoniazid
-Rifampicin/isoniazid	FALSE	TRUE	TRUE	FALSE	Rifampicin/Isoniazid	Rifampicine/isoniazide	Rifampicina/isoniazida	Rifampicina/isoniazide	Rifampicine/isoniazide	Rifampicina/isoniazida	Rifampicin/isoniazid
-Rifamycin	FALSE	TRUE	TRUE	FALSE	Rifamycin	Rifamycine	Rifamicina	Rifamicina	Rifamycine	Rifamycin	Rifamycin
-Rifaximin	FALSE	TRUE	TRUE	FALSE	Rifaximin	Rifaximine	Rifaximina	Rifaximina	Rifaximine	Rifaximin	Rifaximin
-Rokitamycin	FALSE	TRUE	TRUE	FALSE	Rokitamycin	Rokitamycine	Rokitamicina	Rokitamicina	Rokitamycine	Rokitamycin	Rokitamycin
-Rosoxacin	FALSE	TRUE	TRUE	FALSE	Rosoxacin	Rosoxacine	Rosoxacina	Rosoxacina	Rosoxacine	Rosoxacina	Rosoxacin
-Roxithromycin	FALSE	TRUE	TRUE	FALSE	Roxithromycin	Roxitromycine	Roxitromicina	Roxitromicina	Roxithromycine	Roxitromicina	Roxithromycin
-Rufloxacin	FALSE	TRUE	TRUE	FALSE	Rufloxacin	Rufloxacine	Rufloxacina	Rufloxacina	Rufloxacine	Rufloxacin	Rufloxacin
-Sisomicin	FALSE	TRUE	TRUE	FALSE	Sisomicin	Sisomicine	Sisomicina	Sisomicina	Sisomicine	Sisomicina	Sisomicin
-Sodium aminosalicylate	FALSE	TRUE	TRUE	FALSE	Natrium-Aminosalicylat	Aminosalicylzuur	Aminosalicilato de sodio	Sodio aminosalicilato	Aminosalicylate de sodium	Aminosalicilato de sódio	Natriumaminosalicylat
-Sparfloxacin	FALSE	TRUE	TRUE	FALSE	Sparfloxacin	Sparfloxacine	Esparfloxacina	Sparfloxacina	Sparfloxacine	Sparfloxacin	Sparfloxacin
-Spectinomycin	FALSE	TRUE	TRUE	FALSE	Spectinomycin	Spectinomycine	Espectinomicina	Spectinomycin	Spectinomycine	Spectinomycin	Spectinomycin
-Spiramycin	FALSE	TRUE	TRUE	FALSE	Spiramycin	Spiramycine	Espiramicina	Spiramicina	Spiramycine	Spiramycin	Spiramycin
-Spiramycin/metronidazole	FALSE	TRUE	TRUE	FALSE	Spiramycin/Metronidazol	Spiramycine/metronidazol	Espiramicina/metronidazol	Spiramicina/metronidazolo	Spiramycine/métronidazole	Spiramycin/metronidazol	Spiramycin/metronidazol
-Staphylococcus immunoglobulin	FALSE	TRUE	TRUE	FALSE	Staphylococcus-Immunoglobulin	Stafylokokkenimmunoglobuline	Inmunoglobulina estafilocócica	Immunoglobulina per stafilococco	Immunoglobuline staphylococcique	Imunoglobulina de Staphylococcus	Stafylokok-immunglobulin
-Streptoduocin	FALSE	TRUE	TRUE	FALSE	Streptoduocin	Streptoduocine	Estreptoduocina	Streptoduocin	Streptoduocine	Estreptoduocina	Streptoduocin
-Streptomycin	FALSE	TRUE	TRUE	FALSE	Streptomycin	Streptomycine	Estreptomicina	Streptomicina	Streptomycine	Streptomycin	Streptomycin
-Streptomycin/isoniazid	FALSE	TRUE	TRUE	FALSE	Streptomycin/Isoniazid	Streptomycine/isoniazide	Estreptomicina/isoniazida	Streptomicina/isoniazide	Streptomycine/isoniazide	Streptomicina/isoniazida	Streptomycin/isoniazid
-Sulbenicillin	FALSE	TRUE	TRUE	FALSE	Sulbenicillin	Sulbenicilline	Sulbenicilina	Sulbenicillina	Sulbenicilline	Sulbenicilina	Sulbenicillin
-Sulfadiazine/tetroxoprim	FALSE	TRUE	TRUE	FALSE	Sulfadiazin/Tetroxoprim	Sulfadiazine/tetroxoprim	Sulfadiazina/tetroxoprim	Sulfadiazina/tetroxoprim	Sulfadiazine/tetroxoprime	Sulfadiazina/tetroxoprim	Sulfadiazin/tetroxoprim
-Sulfadiazine/trimethoprim	FALSE	TRUE	TRUE	FALSE	Sulfadiazin/Trimethoprim	Sulfadiazine/trimethoprim	Sulfadiazina/trimetoprima	Sulfadiazina/trimetoprim	Sulfadiazine/triméthoprime	Sulfadiazina/trimethoprim	Sulfadiazin/trimethoprim
-Sulfadimidine/trimethoprim	FALSE	TRUE	TRUE	FALSE	Sulfadimidin/Trimethoprim	Sulfadimidine/trimethoprim	Sulfadimidina/trimetoprima	Sulfadimidina/trimetoprim	Sulfadimidine/triméthoprime	Sulfadimidina/trimethoprim	Sulfadimidin/trimethoprim
-Sulfafurazole	FALSE	TRUE	TRUE	FALSE	Sulfafurazol	Sulfafurazol	Sulfafurazol	Sulfafurazolo	Sulfafurazole	Sulfafurazole	Sulfafurazol
-Sulfaisodimidine	FALSE	TRUE	TRUE	FALSE	Sulfaisodimidin	Sulfisomidine	Sulfaisodimidina	Sulfaisodimidina	Sulfaisodimidine	Sulfaisodimidina	Sulfaisodimidin
-Sulfalene	FALSE	TRUE	TRUE	FALSE	Sulfalene	Sulfaleen	Sulfaleno	Sulfalene	Sulfalène	Sulfaleno	Sulfalen
-Sulfamazone	FALSE	TRUE	TRUE	FALSE	Sulfamazon	Sulfamazon	Sulfamazona	Sulfamazone	Sulfamazone	Sulfamazona	Sulfamazon
-Sulfamerazine/trimethoprim	FALSE	TRUE	TRUE	FALSE	Sulfamerazin/Trimethoprim	Sulfamerazine/trimethoprim	Sulfamerazina/trimetoprima	Sulfamerazina/trimetoprim	Sulfamérazine/triméthoprime	Sulfamerazina/trimethoprim	Sulfamerazin/trimethoprim
-Sulfamethizole	FALSE	TRUE	TRUE	FALSE	Sulfamethizol	Sulfamethizol	Sulfametozol	Sulfamethizolo	Sulfaméthizole	Sulfametizole	Sulfamethizol
-Sulfamethoxazole	FALSE	TRUE	TRUE	FALSE	Sulfamethoxazol	Sulfamethoxazol	Sulfametoxazol	Sulfametossazolo	Sulfaméthoxazole	Sulfamethoxazole	Sulfamethoxazol
-Sulfamethoxazole/trimethoprim	FALSE	TRUE	TRUE	FALSE	Sulfamethoxazol/Trimethoprim	Sulfamethoxazol/trimethoprim	Sulfametoxazol/trimetoprima	Sulfametossazolo/trimetoprim	Sulfaméthoxazole/triméthoprime	Sulfametoxazol/trimethoprim	Sulfamethoxazol/trimethoprim
-Sulfametoxydiazine	FALSE	TRUE	TRUE	FALSE	Sulfametoxydiazin	Sulfamethoxydiazine	Sulfametoxidiazina	Sulfametoxydiazine	Sulfamétoxydiazine	Sulfametoxidiazina	Sulfametoxydiazin
-Sulfametrole/trimethoprim	FALSE	TRUE	TRUE	FALSE	Sulfametrole/Trimethoprim	Sulfametrol/trimethoprim	Sulfametrol/trimetoprima	Sulfametrole/trimetoprim	Sulfamétrole/triméthoprime	Sulfametrole/trimethoprim	Sulfametrol/trimethoprim
-Sulfamoxole	FALSE	TRUE	TRUE	FALSE	Sulfamoxol	Sulfamoxol	Sulfamoxole	Sulfamoxolo	Sulfamoxole	Sulfamoxole	Sulfamoxol
-Sulfamoxole/trimethoprim	FALSE	TRUE	TRUE	FALSE	Sulfamoxol/Trimethoprim	Sulfamoxol/trimethoprim	Sulfamoxol/trimetoprima	Sulfamoxolo/trimetoprim	Sulfamoxole/triméthoprime	Sulfamoxole/trimethoprim	Sulfamoxol/trimethoprim
-Sulfaperin	FALSE	TRUE	TRUE	FALSE	Sulfaperin	Sulfaperine	Sulfametoxazol	Sulfaperin	Sulfapérine	Sulfaperin	Sulfaperin
-Sulfaphenazole	FALSE	TRUE	TRUE	FALSE	Sulfaphenazol	Sulfafenazol	Sulfafenazol	Sulfafenazolo	Sulfaphénazole	Sulfafenazol	Sulfaphenazol
-Sulfathiazole	FALSE	TRUE	TRUE	FALSE	Sulfathiazol	Sulfathiazol	Sulfatiazol	Sulfathiazole	Sulfathiazole	Sulfatazol	Sulfathiazol
-Sulfathiourea	FALSE	TRUE	TRUE	FALSE	Sulfathioharnstoff	Sulfathioureum	Sulfathiourea	Sulfathiourea	Sulfathiourée	Sulfathiourea	Sulfathiourea
-Sultamicillin	FALSE	TRUE	TRUE	FALSE	Sultamicillin	Sultamicilline	Sultamicilina	Sultamicillina	Sultamicilline	Sultamicillin	Sultamicillin
-Talampicillin	FALSE	TRUE	TRUE	FALSE	Talampicillin	Talampicilline	Talampicilina	Talampicillina	Talampicilline	Talampicilina	Talampicillin
-Teicoplanin	FALSE	TRUE	TRUE	FALSE	Teicoplanin	Teicoplanine	Teicoplanina	Teicoplanina	Teicoplanine	Teicoplanin	Teicoplanin
-Telithromycin	FALSE	TRUE	TRUE	FALSE	Telithromycin	Telitromycine	Telitromicina	Telitromicina	Télithromycine	Telitromicina	Telithromycin
-Temafloxacin	FALSE	TRUE	TRUE	FALSE	Temafloxacin	Temafloxacine	Temafloxacina	Temafloxacina	Temafloxacine	Temafloxacin	Temafloxacin
-Temocillin	FALSE	TRUE	TRUE	FALSE	Temocillin	Temocilline	Temocilina	Temocillina	Temocillin	Temocillin	Temocillin
-Tenofovir disoproxil	FALSE	TRUE	TRUE	FALSE	Tenofovir Disoproxil	Tenofovir	Tenofovir disoproxil	Tenofovir disoproxil	Tenofovir disoproxil	Tenofovir disoproxil	Tenofovir disoproxil
-Terizidone	FALSE	TRUE	TRUE	FALSE	Terizidon	Terizidon	Terizidona	Terizidone	Terizidone	Terizidone	Terizidon
-Thiamphenicol	FALSE	TRUE	TRUE	FALSE	Thiamphenicol	Thiamfenicol	Tiamfenicol	Tiamfenicolo	Thiamphénicol	Tiamfenicol	Thiamphenicol
-Thioacetazone/isoniazid	FALSE	TRUE	TRUE	FALSE	Thioacetazon/Isoniazid	Thioacetazon/isoniazide	Tioacetazona/isoniazida	Tioacetazone/isoniazide	Thioacétazone/isoniazide	Thioacetazone/isoniazid	Thioacetazon/isoniazid
-Ticarcillin	FALSE	TRUE	TRUE	FALSE	Ticarcillin	Ticarcilline	Ticarcilina	Ticarcillina	Ticarcilline	Ticarcilina	Ticarcillin
-Ticarcillin/beta-lactamase inhibitor	FALSE	TRUE	TRUE	FALSE	Ticarcillin/Beta-Lactamase-Hemmer	Ticarcilline/enzymremmer	Ticarcilina/inhib. de la betalactamasa	Ticarcillina/inib. d. beta-lattamasi	Ticarcilline/inhib. de bêta-lactamase	Ticarcilina/inibid. da beta-lactamase	Ticarcillin/beta-lactamasehæmmer
-Ticarcillin/clavulanic acid	FALSE	TRUE	TRUE	FALSE	Ticarcillin/Clavulansäure	Ticarcilline/clavulaanzuur	Ticarcilina/ácido clavulánico	Ticarcillina/acido clavulanico	Ticarcilline/acide clavulanique	Ticarcilina/ácido clavulanico	Ticarcillin/clavulansyre
-Tinidazole	FALSE	TRUE	TRUE	FALSE	Tinidazol	Tinidazol	Tinidazol	Tinidazolo	Tinidazole	Tinidazole	Tinidazol
-Tobramycin	FALSE	TRUE	TRUE	FALSE	Tobramycin	Tobramycine	Tobramicina	Tobramicina	Tobramycine	Tobramycin	Tobramycin
-Trimethoprim/sulfamethoxazole	FALSE	TRUE	TRUE	FALSE	Trimethoprim/Sulfamethoxazol	Cotrimoxazol	Trimetoprima/sulfametoxazol	Trimetoprim/sulfametossazolo	Triméthoprime/sulfaméthoxazole	Trimethoprim/sulfametoxazol	Trimethoprim/sulfamethoxazol
-Troleandomycin	FALSE	TRUE	TRUE	FALSE	Troleandomycin	Troleandomycine	Troleandomicina	Troleandomicina	Troleandomycine	Troleandomicina	Troleandomycin
-Trovafloxacin	FALSE	TRUE	TRUE	FALSE	Trovafloxacin	Trovafloxacine	Trovafloxacina	Trovafloxacin	Trovafloxacine	Trovafloxacin	Trovafloxacin
-Vancomycin	FALSE	TRUE	TRUE	FALSE	Vancomycin	Vancomycine	Vancomicina	Vancomicina	Vancomycine	Vancomycin	Vancomycin
-Voriconazole	FALSE	TRUE	TRUE	FALSE	Voriconazol	Voriconazol	Voriconazol	Voriconazolo	Voriconazole	Voriconazol	Voriconazol
-Aminoglycosides	FALSE	TRUE	TRUE	FALSE	Aminoglykoside	Aminoglycosiden	Aminoglucósidos	Aminoglicosidi	Aminoglycosides	Aminoglycosides	Aminoglykosider
-Amphenicols	FALSE	TRUE	TRUE	FALSE	Amphenicole	Amfenicolen	Anfenicoles	Amphenicols	Amphénicols	Anfenicóis	Amphenicoler
-Antifungals/antimycotics	FALSE	TRUE	TRUE	FALSE	Antimykotika/Antimykotika	Antifungica/antimycotica	Antifúngicos/antimicóticos	Antifungini/antimicotici	Antifongiques/antimycotiques	Antifúngicos/antimicóticos	Antimykotika/antimykotika
-Antimycobacterials	FALSE	TRUE	TRUE	FALSE	Antimykobakterielle Mittel	Antimycobacteriele middelen	Antimicrobianos	Antimicobatterici	Antimycobactériens	Antimycobacterials	Antimycobakterier
-Beta-lactams/penicillins	FALSE	TRUE	TRUE	FALSE	Beta-Lactame/Penicilline	Beta-lactams/penicillines	Beta-lactámicos/penicilinas	Beta-lattami/penicilline	Bêta-lactamines/pénicillines	Beta-lactâmicas/penicilinas	Beta-lactamer/penicilliner
-Cephalosporins (1st gen.)	FALSE	TRUE	TRUE	FALSE	Cephalosporine (1. Gen.)	Cefalosporines (1e gen.)	Cefalosporinas (1er gen.)	Cefalosporine (1° gen.)	Céphalosporines (1ère génération)	Cefalosporinas (1º género)	Cefalosporiner (1. gen.)
-Cephalosporins (2nd gen.)	FALSE	TRUE	TRUE	FALSE	Cephalosporine (2. Gen.)	Cefalosporines (2e gen.)	Cefalosporinas (2do gen.)	Cefalosporine (2° gen.)	Céphalosporines (2ème génération)	Cefalosporinas (2ª gen.)	Cefalosporiner (2. gen.)
-Cephalosporins (3rd gen.)	FALSE	TRUE	TRUE	FALSE	Cephalosporine (3. Gen.)	Cefalosporines (3e gen.)	Cefalosporinas (3er gen.)	Cefalosporine (3° gen.)	Céphalosporines (3ème génération)	Cefalosporinas (3ª gen.)	Cefalosporiner (3. gen.)
-Cephalosporins (4th gen.)	FALSE	TRUE	TRUE	FALSE	Cephalosporine (4. Gen.)	Cefalosporines (4e gen.)	Cefalosporinas (4ª gen.)	Cefalosporine (4° gen.)	Céphalosporines (4ème génération)	Cefalosporinas (4.ª gen.)	Cefalosporiner (4. gen.)
-Cephalosporins (5th gen.)	FALSE	TRUE	TRUE	FALSE	Cephalosporine (5. Gen.)	Cefalosporines (5e gen.)	Cefalosporinas (5º gen.)	Cefalosporine (5° gen.)	Céphalosporines (5e gén.)	Cefalosporinas (5.ª gen.)	Cefalosporiner (5. gen.)
-Cephalosporins (unclassified gen.)	FALSE	TRUE	TRUE	FALSE	Cephalosporine (unklassifiziert)	Cefalosporines (ongeclassificeerd)	Cefalosporinas (gen. no clasificado)	Cefalosporine (gen. non classificato)	Céphalosporines (genre non classifié)	Cefalosporinas (não classificado gen.)	Cefalosporiner (uklassificeret gen.)
-Cephalosporins	FALSE	TRUE	TRUE	FALSE	Cephalosporine	Cefalosporines	Cefalosporinas	Cefalosporine	Céphalosporines	Cefalosporinas	Cefalosporiner
-Glycopeptides	FALSE	TRUE	TRUE	FALSE	Glykopeptide	Glycopeptiden	Glicopéptidos	Glicopeptidi	Glycopeptides	Glycopeptides	Glykopeptider
-Macrolides/lincosamides	FALSE	TRUE	TRUE	FALSE	Makrolide/Linkosamide	Macroliden/lincosamiden	Macrólidos/lincosamidas	Macrolidi/lincosamidi	Macrolides/lincosamides	Macrolides/lincosamidas	Makrolider/lincosamider
-Other antibacterials	FALSE	TRUE	TRUE	FALSE	Andere Antibiotika	Overige antibiotica	Otros antibacterianos	Altri antibatterici	Autres antibactériens	Outros antibacterianos	Andre antibakterielle stoffer
-Polymyxins	FALSE	TRUE	TRUE	FALSE	Polymyxine	Polymyxines	Polimixinas	Polimixine	Polymyxines	Polimixinas	Polymyxiner
-Quinolones	FALSE	TRUE	TRUE	FALSE	Quinolone	Quinolonen	Quinolonas	Chinoloni	Quinolones	Quinolones	Kinoloner
+pattern	regular_expr	case_sensitive	affect_ab_name	affect_mo_name	de	nl	es	it	fr	pt	da	sv	ru
+Coagulase-negative Staphylococcus	TRUE	TRUE	FALSE	TRUE	Koagulase-negative Staphylococcus	Coagulase-negatieve Staphylococcus	Staphylococcus coagulasa negativo	Staphylococcus negativo coagulasi	Staphylococcus à coagulase négative	Staphylococcus coagulase negativo	Koagulase-negative stafylokokker	Koagulasnegativa stafylokocker	Коагулазоотрицательный стафилококк
+Coagulase-positive Staphylococcus	TRUE	TRUE	FALSE	TRUE	Koagulase-positive Staphylococcus	Coagulase-positieve Staphylococcus	Staphylococcus coagulasa positivo	Staphylococcus positivo coagulasi	Staphylococcus à coagulase positif	Staphylococcus coagulase positivo	Koagulase-positive stafylokokker	Koagulaspositiva stafylokocker	Коагулазоположительный стафилококк
+Beta-haemolytic Streptococcus	TRUE	TRUE	FALSE	TRUE	Beta-hämolytischer Streptococcus	Beta-hemolytische Streptococcus	Streptococcus Beta-hemolítico	Streptococcus Beta-emolitico	Streptococcus Bêta-hémolytique	Streptococcus Beta-hemolítico	Beta-haemolytiske streptokokker	Beta-hemolytiska streptokocker	Бета-гемолитический стрептококк
+unknown Gram-negatives	TRUE	TRUE	FALSE	TRUE	unbekannte Gramnegativen	onbekende Gram-negatieven	Gram negativos desconocidos	Gram negativi sconosciuti	Gram négatifs inconnus	Gram negativos desconhecidos	ukendte Gram-negative	okända gramnegativa bakterier	неизвестные грамотрицательные
+unknown Gram-positives	TRUE	TRUE	FALSE	TRUE	unbekannte Grampositiven	onbekende Gram-positieven	Gram positivos desconocidos	Gram positivi sconosciuti	Gram positifs inconnus	Gram positivos desconhecidos	ukendte Gram-positive	okända Gram-positiva	неизвестные грамположительные
+unknown fungus	TRUE	TRUE	FALSE	TRUE	unbekannter Pilze	onbekende schimmel	hongo desconocido	fungo sconosciuto	champignon inconnu	fungo desconhecido	ukendt svamp	Okänd svamp	неизвестный грибок
+unknown yeast	TRUE	TRUE	FALSE	TRUE	unbekannte Hefe	onbekende gist	levadura desconocida	lievito sconosciuto	levure inconnue	levedura desconhecida	ukendt gær	Okänd jäst	неизвестные дрожжи
+unknown name	TRUE	TRUE	FALSE	TRUE	unbekannte Name	onbekende naam	nombre desconocido	nome sconosciuto	nom inconnu	nome desconhecido	ukendt navn	okänt namn	неизвестное название
+unknown kingdom	TRUE	TRUE	FALSE	TRUE	unbekanntes Reich	onbekend koninkrijk	reino desconocido	regno sconosciuto	règme inconnu	reino desconhecido	ukendt kongerige	okänt rike	неизвестное царство
+unknown phylum	TRUE	TRUE	FALSE	TRUE	unbekannter Stamm	onbekend fylum	filo desconocido	phylum sconosciuto	embranchement inconnu	filo desconhecido	ukendt stamme	okänt fylum	неизвестный филум
+unknown class	TRUE	TRUE	FALSE	TRUE	unbekannte Klasse	onbekende klasse	clase desconocida	classe sconosciuta	classe inconnue	classe desconhecida	ukendt klasse	okänd klass	неизвестный класс
+unknown order	TRUE	TRUE	FALSE	TRUE	unbekannte Ordnung	onbekende orde	orden desconocido	ordine sconosciuto	ordre inconnu	ordem desconhecido	ukendt orden	okänd ordning	неизвестный порядок
+unknown family	TRUE	TRUE	FALSE	TRUE	unbekannte Familie	onbekende familie	familia desconocida	famiglia sconosciuta	famille inconnue	família desconhecida	ukendt familie	okänd familj	неизвестное семейство
+unknown genus	TRUE	TRUE	FALSE	TRUE	unbekannte Gattung	onbekend geslacht	género desconocido	genere sconosciuto	genre inconnu	gênero desconhecido	ukendt slægt	okänt släkte	неизвестный род
+unknown species	TRUE	TRUE	FALSE	TRUE	unbekannte Art	onbekende soort	especie desconocida	specie sconosciute	espèce inconnue	espécies desconhecida	ukendt art	okänd art	неизвестный вид
+unknown subspecies	TRUE	TRUE	FALSE	TRUE	unbekannte Unterart	onbekende ondersoort	subespecie desconocida	sottospecie sconosciute	sous-espèce inconnue	subespécies desconhecida	ukendt underart	okänd underart	неизвестный подвид
+unknown rank	TRUE	TRUE	FALSE	TRUE	unbekannter Rang	onbekende rang	rango desconocido	grado sconosciuto	rang inconnu	classificação desconhecido	ukendt rang	okänd rang	неизвестный ранг
+ group 	TRUE	TRUE	FALSE	TRUE	 Gruppe 	 groep 	 grupo 	 gruppo 	 groupe 	 grupo 	 gruppe 	 grupp 	 группа 
+CoNS	FALSE	TRUE	FALSE	TRUE	KNS	CNS	SCN				KNS	KNS	КОС
+CoPS	FALSE	TRUE	FALSE	TRUE	KPS	CPS	SCP				KPS	KPS	КПС
+Gram-negative	TRUE	TRUE	FALSE	FALSE	Gramnegativ	Gram-negatief	Gram negativo	Gram negativo	Gram négatif	Gram negativo	Gram-negativ	Gram-negativ	Грамотрицательные
+Gram-positive	TRUE	TRUE	FALSE	FALSE	Grampositiv	Gram-positief	Gram positivo	Gram positivo	Gram positif	Gram positivo	Gram-positiv	Gram-positiv	Грамположительные
+^Bacteria$	TRUE	TRUE	FALSE	FALSE	Bakterien	Bacteriën	Bacterias	Batteri	Bactéries	Bactérias	Bakterier	Bakterier	Бактерии
+^Fungi$	TRUE	TRUE	FALSE	FALSE	Pilze	Schimmels	Hongos	Funghi	Champignons	Fungos	Støbeforme	Svampar	Грибы
+^Yeasts$	TRUE	TRUE	FALSE	FALSE	Hefen	Gisten	Levaduras	Lieviti	Levures	Leveduras	Gær	Jästdjur	Животные
+^Protozoa$	TRUE	TRUE	FALSE	FALSE	Protozoen	Protozoën	Protozoarios	Protozoi	Protozoaires	Protozoários	Protozoer	Protozoer	Протозоа
+biogroup	TRUE	TRUE	FALSE	FALSE	Biogruppe	biogroep	biogrupo	biogruppo	biogroupe	biogrupo	biogruppe	biogrupp	биогруппа
+biotype	TRUE	TRUE	FALSE	FALSE	Biotyp		biotipo	biotipo		biótipo	biotype	biotyp	биотип
+vegetative	TRUE	TRUE	FALSE	FALSE	vegetativ	vegetatief	vegetativo	vegetativo	végétatif	vegetativo	vegetativ	vegetativ	вегетативный
+([([ ]*?)group	TRUE	TRUE	FALSE	FALSE	\\1Gruppe	\\1groep	\\1grupo	\\1gruppo	\\1groupe	\\1grupo	\\1gruppe	\\1grupp	\\1группа
+([([ ]*?)Group	TRUE	TRUE	FALSE	FALSE	\\1Gruppe	\\1Groep	\\1Grupo	\\1Gruppo	\\1Groupe	\\1Grupo	\\1Gruppe	\\1Grupp	\\1Группа
+no .*growth	TRUE	FALSE	FALSE	FALSE	keine? .*wachstum	geen .*groei	no .*crecimientonon	sem .*crescimento	pas .*croissance	sem .*crescimento	ingen .*vækst	ingen .*tillväxt	отсутствие.*роста
+no|not	TRUE	FALSE	FALSE	FALSE	keine?	geen|niet	no|sin	sem	non	sem	nej|ikke	nej|inte	нет?
+Intermediate	TRUE	FALSE	FALSE	FALSE	Mittlere	Intermediair	Intermedio						
+Susceptible, incr. exp.	FALSE	TRUE	FALSE	FALSE	Empfindlich, erh Belastung	Gevoelig, hoge dosis							
+susceptible, incr. exp.	FALSE	TRUE	FALSE	FALSE	empfindlich, erh Belastung	gevoelig, hoge dosis							
+Susceptible	TRUE	FALSE	FALSE	FALSE	Empfindlich	Gevoelig	Susceptible						
+Incr. exposure	TRUE	FALSE	FALSE	FALSE	Empfindlich, erh Belastung	'Incr. exposure'	'Incr. exposure'						
+Resistant	TRUE	FALSE	FALSE	FALSE	Resistent	Resistent	Resistente						
+antibiotic	TRUE	TRUE	FALSE	FALSE	Antibiotikum	antibioticum	antibiótico	antibiotico	antibiotique	antibiótico	antibiotikum	antibiotika	антибиотик
+Antibiotic	TRUE	TRUE	FALSE	FALSE	Antibiotikum	Antibioticum	Antibiótico	Antibiotico	Antibiotique	Antibiótico	Antibiotikum	Antibiotika	Антибиотик
+Drug	TRUE	TRUE	FALSE	FALSE	Medikament	Middel	Fármaco	Droga	Médicament	Droga	Lægemiddel	Läkemedel	Лекарство
+drug	TRUE	TRUE	FALSE	FALSE	Medikament	middel	fármaco	droga	médicament	droga	lægemiddel	läkemedel	лекарство
+Frequency	FALSE	TRUE	FALSE	FALSE	Zahl	Aantal	Frecuencia	Frequenza	Fréquence	Frequência	Frekvens	Frekvens	Частота
+Minimum Inhibitory Concentration (mg/L)	FALSE	FALSE	FALSE	FALSE	Minimale Hemm-Konzentration (mg/L)	Minimale inhiberende concentratie (mg/L)	Concentración mínima inhibitoria (mg/L)	Concentrazione minima inibitoria (mg/L)	Concentration minimale inhibitrice (mg/L)	Concentração Inibitória Mínima (mg/L)	Mindste hæmmende koncentration (mg/L)	Minsta hämmande koncentration (mg/L)	Минимальная ингибирующая концентрация (мг/л)
+Disk diffusion diameter (mm)	FALSE	FALSE	FALSE	FALSE	Durchmesser der Scheibenzone (mm)	Diameter diskzone (mm)	Diámetro de difusión en disco (mm)	Diametro di diffusione del disco (mm)	Diamètre de diffusion en disque (mm)	Diâmetro de difusão do disco (mm)	Diskdiffusionsdiameter (mm)	Diskdiffusionsdiameter (mm)	Диаметр диффузии диска (мм)
+Antimicrobial Interpretation	FALSE	FALSE	FALSE	FALSE	Antimikrobielle Auswertung	Antimicrobiële interpretatie	Interpretación antimicrobiana	Interpretazione antimicrobica	Interprétation antimicrobienne	Interpretação Antimicrobiana	Antimikrobiel fortolkning	Antimikrobiell tolkning	Антимикробная интерпретация
+4-aminosalicylic acid	FALSE	TRUE	TRUE	FALSE	4-Aminosalicylsäure	4-aminosalicylzuur	Ácido 4-aminosalicílico	Acido 4-aminosalicilico	Acide 4-aminosalicylique	Ácido 4-aminosalicílico	4-aminosalicylsyre	4-aminosalicylsyra	4-аминосалициловая кислота
+Adefovir dipivoxil	FALSE	TRUE	TRUE	FALSE	Adefovir Dipivoxil	Adefovir	Adefovir dipivoxil	Adefovir dipivoxil	Adéfovir dipivoxil	Adefovir dipivoxil	Adefovir dipivoxil	Adefovir dipivoxil	Адефовир дипивоксил
+Aldesulfone sodium	FALSE	TRUE	TRUE	FALSE	Aldesulfon-Natrium	Aldesulfon	Aldesulfona sódica	Aldesulfone sodio	Aldésulfone sodique	Aldesulfona de sódio	Aldesulfon-natrium	Aldesulfonnatrium	Альдесульфон натрия
+Amikacin	FALSE	TRUE	TRUE	FALSE	Amikacin	Amikacine	Amikacina	Amikacin	Amikacine	Amikacin	Amikacin	Amikacin	Амикацин
+Amoxicillin	FALSE	TRUE	TRUE	FALSE	Amoxicillin	Amoxicilline	Amoxicilina	Amoxicillina	Amoxicilline	Amoxicilina	Amoxicillin	Amoxicillin	Амоксициллин
+Amoxicillin/beta-lactamase inhibitor	FALSE	TRUE	TRUE	FALSE	Amoxicillin/Beta-Lactamase-Hemmer	Amoxicilline/enzymremmer	Amoxicilina/inhib. de la beta-lactamasa	Amoxicillina/inib. d. beta-lattamasi	Amoxicilline/inhib. de bêta-lactamase	Amoxicilina/inibid. da beta-lactamase	Amoxicillin/beta-lactamasehæmmer	Amoxicillin/betalaktamashämmare	Амоксициллин/ингибитор бета-лактамаз
+Amphotericin B	FALSE	TRUE	TRUE	FALSE	Amphotericin B	Amfotericine B	Anfotericina B	Amfotericina B	Amphotéricine B	Anfotericina B	Amfotericin B	Amfotericin B	Амфотерицин В
+Ampicillin	FALSE	TRUE	TRUE	FALSE	Ampicillin	Ampicilline	Ampicilina	Ampicillina	Ampicilline	Ampicilina	Ampicillin	Ampicillin	Ампициллин
+Ampicillin/beta-lactamase inhibitor	FALSE	TRUE	TRUE	FALSE	Ampicillin/Beta-Laktamase-Hemmer	Ampicilline/enzymremmer	Ampicilina/inhib. de la beta-lactamasa	Ampicillina/inib. d. beta-lattamasi	Ampicilline/inhib. de bêta-lactamase	Ampicilina/inibid. da beta-lactamase	Ampicillin/beta-lactamasehæmmer	Ampicillin/beta-laktamashämmare	Ампициллин/ингибитор бета-лактамазы
+Anidulafungin	FALSE	TRUE	TRUE	FALSE	Anidulafungin	Anidulafungine	Anidulafungina	Anidulafungin	Anidulafungine	Anidulafungin	Anidulafungin	Anidulafungin	Анидулафунгин
+Azidocillin	FALSE	TRUE	TRUE	FALSE	Azidocillin	Azidocilline	Azidocilina	Azidocillina	Azidocilline	Azidocillin	Azidocillin	Azidocillin	Азидоциллин
+Azithromycin	FALSE	TRUE	TRUE	FALSE	Azithromycin	Azitromycine	Azitromicina	Azitromicina	Azithromycine	Azitromicina	Azithromycin	Azitromycin	Азитромицин
+Azlocillin	FALSE	TRUE	TRUE	FALSE	Azlocillin	Azlocilline	Azlocilina	Azlocillina	Azlocilline	Azlocillin	Azlocillin	Azlocillin	Азлоциллин
+Bacampicillin	FALSE	TRUE	TRUE	FALSE	Bacampicillin	Bacampicilline	Bacampicilina	Bacampicillina	Bacampicilline	Bacampicilina	Bacampicillin	Bacampicillin	Бакампициллин
+Bacitracin	FALSE	TRUE	TRUE	FALSE	Bacitracin	Bacitracine	Bacitracina	Bacitracina	Bacitracine	Bacitracin	Bacitracin	Bacitracin	Бацитрацин
+Benzathine benzylpenicillin	FALSE	TRUE	TRUE	FALSE	Benzathin-Benzylpenicillin	Benzylpenicillinebenzathine	Bencilpenicilina benzatínica	Benzatina benzilpenicillina	Benzathine benzylpénicilline	Benzatina benzatina benzilpenicilina	Benzathinbenzylpenicillin	Benzathinbenzylpenicillin	Бензатин бензилпенициллин
+Benzathine phenoxymethylpenicillin	FALSE	TRUE	TRUE	FALSE	Benzathin-Phenoxymethylpenicillin	Fenoxymethylpenicillinebenzathine	Fenoximetilpenicilina benzatínica	Benzatina fenossimetilpenicillina	Phénoxyméthylpénicilline benzathine	Benzatina fenoximetilpenicilina	Benzathinfenoxymethylpenicillin	Bensathinfenoximetylpenicillin	Бензатин феноксиметилпенициллин
+Benzylpenicillin	FALSE	TRUE	TRUE	FALSE	Benzylpenicillin	Benzylpenicilline	Bencilpenicilina	Benzilpenicillina	Benzylpénicilline	Benzilpenicilina	Benzylpenicillin	Bensylpenicillin	Бензилпенициллин
+Calcium aminosalicylate	FALSE	TRUE	TRUE	FALSE	Kalzium-Aminosalicylat	Aminosalicylzuur	Aminosalicilato de calcio	Calcio aminosalicilato	Aminosalicylate de calcium	Aminosalicilato de cálcio	Calciumaminosalicylat	Kalciumaminosalicylat	Аминосалицилат кальция
+Capreomycin	FALSE	TRUE	TRUE	FALSE	Capreomycin	Capreomycine	Capreomicina	Capreomicina	Capréomycine	Capreomicina	Capreomycin	Kapreomycin	Капреомицин
+Carbenicillin	FALSE	TRUE	TRUE	FALSE	Carbenicillin	Carbenicilline	Carbenicilina	Carbenicillina	Carbénicilline	Carbenicilina	Carbenicillin	Karbenicillin	Карбенициллин
+Carindacillin	FALSE	TRUE	TRUE	FALSE	Carindacillin	Carindacilline	Carindacilina	Carindacillina	Carindacilline	Carindacillin	Carindacillin	Carindacillin	Кариндациллин
+Caspofungin	FALSE	TRUE	TRUE	FALSE	Caspofungin	Caspofungine	Caspofungina	Caspofungin	Caspofungine	Caspofungin	Caspofungin	Caspofungin	Каспофунгин
+Ce(f|ph)acetrile	TRUE	TRUE	TRUE	FALSE	Cefacetril	Cefacetril	Cefacetrilo	Cefacetrile	Céphacétrile	Cephacetrile	Cephacetril	Cephacetril	Цефацетрил
+Ce(f|ph)alotin	TRUE	TRUE	TRUE	FALSE	Cefalotin	Cefalotine	Cefalotina	Cefalotina	Céphalotine	Cefalotina	Cephalotin	Cefalotin	Цефалотин
+Ce(f|ph)amandole	TRUE	TRUE	TRUE	FALSE	Cefamandol	Cefamandol	Cefamandole	Cephamandole	Céphamandole	Cephamandole	Cephamandol	Cephamandol	Цефамандол
+Ce(f|ph)apirin	TRUE	TRUE	TRUE	FALSE	Cefapirin	Cefapirine	Cefapirina	Cefapirina	Céphapirine	Cephapirin	Cephapirin	Cephapirin	Цефапирин
+Ce(f|ph)azedone	TRUE	TRUE	TRUE	FALSE	Cefazedon	Cefazedon	Cefazedona	Cefazedone	Céphazédone	Cephazedone	Cephazedon	Cephazedon	Цефазедон
+Ce(f|ph)azolin	TRUE	TRUE	TRUE	FALSE	Cefazolin	Cefazoline	Cefazolina	Cephazolin	Céphazoline	Cephazolin	Cephazolin	Cephazolin	Цефазолин
+Ce(f|ph)alothin	TRUE	TRUE	TRUE	FALSE	Cefalothin	Cefalotine	Cefalotina	Cefalotina	Céphalothine	Cephalothin	Cephalothin	Kefalotin	Цефалотин
+Ce(f|ph)alexin	TRUE	TRUE	TRUE	FALSE	Cefalexin	Cefalexine	Cefalexina	Cephalexin	Céphalexine	Cephalexin	Cephalexin	Cephalexin	Цефалексин
+Ce(f|ph)epime	TRUE	TRUE	TRUE	FALSE	Cefepim	Cefepim	Cefepime	Cephepime	Céphépime	Cephepime	Cephepime	Cephepim	Цефепим
+Ce(f|ph)ixime	TRUE	TRUE	TRUE	FALSE	Cefixim	Cefixim	Cefixima	Cephixime	Céphixime	Cephixime	Cephixim	Cephixim	Цефиксим
+Ce(f|ph)menoxime	TRUE	TRUE	TRUE	FALSE	Cefmenoxim	Cefmenoxim	Cefmenoxima	Cephmenoxime	Céphénoxime	Cephmenoxime	Cephmenoxim	Cephmenoxim	Цефменоксим
+Ce(f|ph)metazole	TRUE	TRUE	TRUE	FALSE	Cefmetazol	Cefmetazol	Cefmetazol	Cephmetazole	Céphmétazole	Cefmetazole	Cephmetazol	Cephmetazol	Цефметазол
+Ce(f|ph)odizime	TRUE	TRUE	TRUE	FALSE	Cefodizim	Cefodizim	Cefodixima	Cephodizime	Céphodizime	Cephodizime	Cephodizim	Cephodizim	Цефодизим
+Ce(f|ph)onicid	TRUE	TRUE	TRUE	FALSE	Cefonicid	Cefonicide	Cefonicida	Cephonicid	Céphonicide	Cefonicid	Cephonicid	Cephonicid	Цефонизид
+Ce(f|ph)operazone	TRUE	TRUE	TRUE	FALSE	Cefoperazon	Cefoperazon	Cefoperazona	Cephoperazone	Céphopérazone	Cephoperazone	Cephoperazon	Cephoperazon	Цефоперазон
+Ce(f|ph)operazone/beta-lactamase inhibitor	TRUE	TRUE	TRUE	FALSE	Cefoperazon/Beta-Lactamase-Hemmer	Cefoperazon/enzymremmer	Cefoperazona/inhib. de betalactamasas	Cephoperazone/inib. d. beta-lattamasi	Céphopérazone/inhib. de bêta-lactamase	Cephoperazona/inibid. da beta-lactamase	Cephoperazon/beta-lactamasehæmmer	Cefoperazon/beta-laktamashämmare	Цефоперазон/ингибитор бета-лактамаз
+Ce(f|ph)otaxime	TRUE	TRUE	TRUE	FALSE	Cefotaxim	Cefotaxim	Cefotaxima	Cephotaxime	Céphotaxime	Cephotaxime	Cephotaxim	Cephotaxim	Цефотаксим
+Ce(f|ph)oxitin	TRUE	TRUE	TRUE	FALSE	Cefoxitin	Cefoxitine	Cefoxitina	Cefossitina	Céphoxitine	Cephoxitin	Cephoxitin	Cephoxitin	Цефокситин
+Ce(f|ph)pirome	TRUE	TRUE	TRUE	FALSE	Cefpirom	Cefpirom	Cephpirome	Cephpirome	Céphpirome	Cefpirome	Cephpirom	Cephpirom	Цефпиром
+Ce(f|ph)podoxime	TRUE	TRUE	TRUE	FALSE	Cefpodoxim	Cefpodoxim	Cefpodoxima	Cephpodoxime	Céphpodoxime	Cephpodoxime	Cephpodoxim	Cephpodoxim	Цефподоксим
+Ce(f|ph)radine	TRUE	TRUE	TRUE	FALSE	Cefradin	Cefradine	Cefradina	Cefradina	Céphradine	Cephradine	Cephradin	Cephradin	Цефрадин
+Ce(f|ph)sulodin	TRUE	TRUE	TRUE	FALSE	Cefsulodin	Cefsulodine	Cefsulodina	Cephsulodin	Céphsulodine	Cephsulodin	Cephsulodin	Cephsulodin	Цефсулодин
+Ce(f|ph)tazidime	TRUE	TRUE	TRUE	FALSE	Ceftazidim	Ceftazidim	Ceftazidima	Ceftazidima	Céphtazidime	Ceftazidima	Cephtazidim	Cephtazidim	Цефтазидим
+Ce(f|ph)tezole	TRUE	TRUE	TRUE	FALSE	Ceftezol	Ceftezol	Ceftezol	Cephtezole	Céphtézole	Ceftezole	Cephtezol	Cephtezole	Цефтезол
+Ce(f|ph)tizoxime	TRUE	TRUE	TRUE	FALSE	Ceftizoxim	Ceftizoxim	Ceftizoxima	Cephtizoxime	Céphtizoxime	Cephtizoxime	Cephtizoxim	Cephtizoxim	Цефтизоксим
+Ce(f|ph)triaxone	TRUE	TRUE	TRUE	FALSE	Ceftriaxon	Ceftriaxon	Ceftriaxona	Ceftriaxone	Céphtriaxone	Cefhtriaxone	Cephtriaxon	Ceftriaxon	Цефтриаксон
+Ce(f|ph)uroxime	TRUE	TRUE	TRUE	FALSE	Cefuroxim	Cefuroxim	Cefuroxima	Cefuroxima	Céphuroxime	Cephuroxime	Cephuroxim	Cefuroxim	Цефуроксим
+Ce(f|ph)uroxime/metronidazole	TRUE	TRUE	TRUE	FALSE	Cefuroxim/Metronidazol	Cefuroxim/andere antibacteriele middelen	Cefuroxima/metronidazol	Cefuroxima/metronidazolo	Céphuroxime/métronidazole	Cephuroxime/metronidazol	Cefuroxim/metronidazol	Cefuroxim/metronidazol	Цефуроксим/метронидазол
+Chloramphenicol	FALSE	TRUE	TRUE	FALSE	Chloramphenicol	Chlooramfenicol	Cloranfenicol	Cloramfenicolo	Chloramphénicol	Cloranfenicol	Kloramfenicol	Kloramfenikol	Хлорамфеникол
+Chlortetracycline	FALSE	TRUE	TRUE	FALSE	Chlortetracyclin	Chloortetracycline	Clortetraciclina	Clorotetraciclina	Chlortétracycline	Chlortetracycline	Chlortetracyclin	Klortetracyklin	Хлортетрациклин
+Cinoxacin	FALSE	TRUE	TRUE	FALSE	Cinoxacin	Cinoxacine	Cinoxacina	Cinoxacina	Cinoxacine	Cinoxacin	Cinoxacin	Cinoxacin	Циноксацин
+Ciprofloxacin	FALSE	TRUE	TRUE	FALSE	Ciprofloxacin	Ciprofloxacine	Ciprofloxacina	Ciprofloxacina	Ciprofloxacine	Ciprofloxacin	Ciprofloxacin	Ciprofloxacin	Ципрофлоксацин
+Clarithromycin	FALSE	TRUE	TRUE	FALSE	Clarithromycin	Claritromycine	Claritromicina	Claritromicina	Clarithromycine	Claritromicina	Clarithromycin	Claritromycin	Кларитромицин
+Clavulanic acid	FALSE	TRUE	TRUE	FALSE	Clavulansäure	Clavulaanzuur	Ácido clavulánico	Acido clavulanico	Acide clavulanique	Ácido clavulânico	Clavulansyre	Clavulansyra	Клавулановая кислота
+clavulanic acid	FALSE	TRUE	TRUE	FALSE	Clavulansäure	clavulaanzuur	ácido clavulánico	acido clavulanico	acide clavulanique	ácido clavulânico	clavulansyre	clavulansyra	клавулановая кислота
+Clindamycin	FALSE	TRUE	TRUE	FALSE	Clindamycin	Clindamycine	Clindamicina	Clindamicina	Clindamycine	Clindamicina	Clindamycin	Clindamycin	Клиндамицин
+Clometocillin	FALSE	TRUE	TRUE	FALSE	Clometocillin	Clometocilline	Clometocilina	Clometocillina	Clométocilline	Clometocillin	Clometocillin	Klometocillin	Клометоциллин
+Clotrimazole	FALSE	TRUE	TRUE	FALSE	Clotrimazol	Clotrimazol	Clotrimazol	Clotrimazolo	Clotrimazole	Clotrimazole	Clotrimazol	Klotrimazol	Клотримазол
+Cloxacillin	FALSE	TRUE	TRUE	FALSE	Cloxacillin	Cloxacilline	Cloxacilina	Cloxacillina	Cloxacilline	Cloxacillin	Cloxacillin	Kloxacillin	Клоксациллин
+Colistin	FALSE	TRUE	TRUE	FALSE	Colistin	Colistine	Colistina	Colistina	Colistine	Colistin	Colistin	Kolistin	Колистин
+Dapsone	FALSE	TRUE	TRUE	FALSE	Dapson	Dapson	Dapsona	Dapsone	Dapsone	Dapsone	Dapson	Dapson	Дапсон
+Daptomycin	FALSE	TRUE	TRUE	FALSE	Daptomycin	Daptomycine	Daptomicina	Daptomicina	Daptomycine	Daptomicina	Daptomycin	Daptomycin	Даптомицин
+Dibekacin	FALSE	TRUE	TRUE	FALSE	Dibekacin	Dibekacine	Dibekacina	Dibekacin	Dibekacine	Dibekacin	Dibekacin	Dibekacin	Дибекацин
+Dicloxacillin	FALSE	TRUE	TRUE	FALSE	Dicloxacillin	Dicloxacilline	Dicloxacilina	Dicloxacillina	Dicloxacilline	Dicloxacilina	Dicloxacillin	Dikloxacillin	Диклоксациллин
+Dirithromycin	FALSE	TRUE	TRUE	FALSE	Dirithromycin	Diritromycine	Diritromicina	Diritromicina	Dirithromycine	Diritromicina	Dirithromycin	Diritromycin	Диритромицин
+Econazole	FALSE	TRUE	TRUE	FALSE	Econazol	Econazol	Econazol	Econazolo	Econazole	Econazole	Econazol	Ekonazol	Эконазол
+Enoxacin	FALSE	TRUE	TRUE	FALSE	Enoxacin	Enoxacine	Enoxacina	Enoxacina	Enoxacine	Enoxacin	Enoxacin	Enoxacin	Эноксацин
+Epicillin	FALSE	TRUE	TRUE	FALSE	Epicillin	Epicilline	Epicilina	Epicillina	Epicilline	Epicilina	Epicillin	Epicillin	Эпициллин
+Erythromycin	FALSE	TRUE	TRUE	FALSE	Erythromycin	Erytromycine	Eritromicina	Eritromicina	Erythromycine	Eritromicina	Erythromycin	Erytromycin	Эритромицин
+Ethambutol/isoniazid	FALSE	TRUE	TRUE	FALSE	Ethambutol/Isoniazid	Ethambutol/isoniazide	Etambutol/isoniazida	Etambutolo/isoniazide	Ethambutol/isoniazide	Ethambutol/isoniazid	Ethambutol/isoniazid	Etambutol/isoniazid	Этамбутол/изониазид
+Fleroxacin	FALSE	TRUE	TRUE	FALSE	Fleroxacin	Fleroxacine	Fleroxacina	Fleroxacina	Fléroxacine	Fleroxacina	Fleroxacin	Fleroxacin	Флероксацин
+Flucloxacillin	FALSE	TRUE	TRUE	FALSE	Flucloxacillin	Flucloxacilline	Flucloxacilina	Flucloxacillina	Flucloxacilline	Flucloxacillin	Flucloxacillin	Flucloxacillin	Флуклоксациллин
+Fluconazole	FALSE	TRUE	TRUE	FALSE	Fluconazol	Fluconazol	Fluconazol	Fluconazolo	Fluconazole	Fluconazole	Fluconazol	Flukonazol	Флуконазол
+Flucytosine	FALSE	TRUE	TRUE	FALSE	Flucytosin	Fluorocytosine	Flucitosina	Flucytosine	Flucytosine	Flucytosine	Flucytosin	Flucytosin	Флуцитозин
+Flurithromycin	FALSE	TRUE	TRUE	FALSE	Flurithromycin	Fluritromycine	Fluritromicina	Fluritromicina	Flurithromycine	Fluritromicina	Flurithromycin	Fluritromycin	Флуритромицин
+Fosfomycin	FALSE	TRUE	TRUE	FALSE	Fosfomycin	Fosfomycine	Fosfomicina	Fosfomicina	Fosfomycine	Fosfomycin	Fosfomycin	Fosfomycin	Фосфомицин
+Fusidic acid	FALSE	TRUE	TRUE	FALSE	Fusidinsäure	Fusidinezuur	Ácido fusídico	Acido fusidico	Acide fusidique	Ácido fusídico	Fusidinsyre	Fusidinsyra	Фузидовая кислота
+Gatifloxacin	FALSE	TRUE	TRUE	FALSE	Gatifloxacin	Gatifloxacine	Gatifloxacina	Gatifloxacina	Gatifloxacine	Gatifloxacin	Gatifloxacin	Gatifloxacin	Гатифлоксацин
+Gemifloxacin	FALSE	TRUE	TRUE	FALSE	Gemifloxacin	Gemifloxacine	Gemifloxacina	Gemifloxacina	Gemifloxacine	Gemifloxacin	Gemifloxacin	Gemifloxacin	Гемифлоксацин
+Gentamicin	FALSE	TRUE	TRUE	FALSE	Gentamicin	Gentamicine	Gentamicina	Gentamicina	Gentamicine	Gentamicina	Gentamicin	Gentamicin	Гентамицин
+Grepafloxacin	FALSE	TRUE	TRUE	FALSE	Grepafloxacin	Grepafloxacine	Grepafloxacina	Grepafloxacina	Grepafloxacine	Grepafloxacin	Grepafloxacin	Grepafloxacin	Грепафлоксацин
+Hachimycin	FALSE	TRUE	TRUE	FALSE	Hachimycin	Hachimycine	Hachimycin	Hachimycin	Hachimycine	Hachimycin	Hachimycin	Hachimycin	Хатимицин
+Hetacillin	FALSE	TRUE	TRUE	FALSE	Hetacillin	Hetacilline	Hetacilina	Hetacillin	Hétacilline	Hetacillin	Hetacillin	Hetacillin	Гетациллин
+Imipenem/cilastatin	FALSE	TRUE	TRUE	FALSE	Imipenem/Cilastatin	Imipenem/enzymremmer	Imipenem/cilastatina	Imipenem/cilastatina	Imipénème/cilastatine	Imipenem/coteltelatina	Imipenem/cilastatin	Imipenem/cilastatin	Имипенем/циластатин
+Inosine pranobex	FALSE	TRUE	TRUE	FALSE	Inosin-Pranobex	Inosiplex	Inosina pranobex	Inosina pranobex	Inosine pranobex	Pranobex inosine	Inosin pranobex	Inosin pranobex	Инозин пранобекс
+Isepamicin	FALSE	TRUE	TRUE	FALSE	Isepamicin	Isepamicine	Isepamicina	Isepamicina	Isepamicine	Isepamicina	Isepamicin	Isepamicin	Исепамицин
+Isoconazole	FALSE	TRUE	TRUE	FALSE	Isoconazol	Isoconazol	Isoconazol	Isoconazolo	Isoconazole	Isoconazole	Isoconazol	Isokonazol	Изоконазол
+Isoniazid	FALSE	TRUE	TRUE	FALSE	Isoniazid	Isoniazide	Isoniazida	Isoniazide	Isoniazide	Isoniazid	Isoniazid	Isoniazid	Изониазид
+Itraconazole	FALSE	TRUE	TRUE	FALSE	Itraconazol	Itraconazol	Itraconazol	Itraconazolo	Itraconazole	Itraconazole	Itraconazol	Itrakonazol	Итраконазол
+Josamycin	FALSE	TRUE	TRUE	FALSE	Josamycin	Josamycine	Josamicina	Josamicina	Josamycine	Josamycin	Josamycin	Josamycin	Джозамицин
+Kanamycin	FALSE	TRUE	TRUE	FALSE	Kanamycin	Kanamycine	Kanamicina	Kanamicina	Kanamycine	Kanamycin	Kanamycin	Kanamycin	Канамицин
+Ketoconazole	FALSE	TRUE	TRUE	FALSE	Ketoconazol	Ketoconazol	Ketoconazol	Ketoconazolo	Kétoconazole	Ketoconazole	Ketoconazol	Ketokonazol	Кетоконазол
+Levofloxacin	FALSE	TRUE	TRUE	FALSE	Levofloxacin	Levofloxacine	Levofloxacina	Levofloxacina	Lévofloxacine	Levofloxacin	Levofloxacin	Levofloxacin	Левофлоксацин
+Lincomycin	FALSE	TRUE	TRUE	FALSE	Lincomycin	Lincomycine	Lincomicina	Lincomicina	Lincomycine	Lincomycin	Lincomycin	Lincomycin	Линкомицин
+Lomefloxacin	FALSE	TRUE	TRUE	FALSE	Lomefloxacin	Lomefloxacine	Lomefloxacina	Lomefloxacina	Loméfloxacine	Lomefloxacin	Lomefloxacin	Lomefloxacin	Ломефлоксацин
+Lysozyme	FALSE	TRUE	TRUE	FALSE	Lysozym	Lysozym	Lisozima	Lisozima	Lysozyme	Lysozyme	Lysozym	Lysozym	Лизоцим
+Mandelic acid	FALSE	TRUE	TRUE	FALSE	Mandelsäure	Amandelzuur	Ácido mandélico	Acido mandelico	Acide mandélique	Ácido mandélico	Mandelinsyre	Mandelsyra	Мандаловая кислота
+Metampicillin	FALSE	TRUE	TRUE	FALSE	Metampicillin	Metampicilline	Metampicilina	Metampicillina	Métampicilline	Metampicilina	Metampicillin	Metampicillin	Метампициллин
+Meticillin	FALSE	TRUE	TRUE	FALSE	Meticillin	Meticilline	Meticilina	Meticillina	Méticilline	Meticillin	Meticillin	Meticillin	Метициллин
+Metisazone	FALSE	TRUE	TRUE	FALSE	Metisazon	Metisazon	Metisazona	Metisazone	Métisazone	Metisazone	Metisazon	Metisazon	Метисазон
+Metronidazole	FALSE	TRUE	TRUE	FALSE	Metronidazol	Metronidazol	Metronidazol	Metronidazolo	Métronidazole	Metronidazol	Metronidazol	Metronidazol	Метронидазол
+Mezlocillin	FALSE	TRUE	TRUE	FALSE	Mezlocillin	Mezlocilline	Mezlocilina	Mezlocillina	Mezlocilline	Mezlocillin	Mezlocillin	Mezlocillin	Мезлоциллин
+Micafungin	FALSE	TRUE	TRUE	FALSE	Micafungin	Micafungine	Micafungina	Micafungin	Micafungine	Micafungin	Micafungin	Micafungin	Микафунгин
+Miconazole	FALSE	TRUE	TRUE	FALSE	Miconazol	Miconazol	Miconazol	Miconazolo	Miconazole	Miconazole	Miconazol	Miconazol	Миконазол
+Midecamycin	FALSE	TRUE	TRUE	FALSE	Midecamycin	Midecamycine	Midecamicina	Midecamicina	Midecamycine	Midecamycin	Midecamycin	Midecamycin	Мидекамицин
+Miocamycin	FALSE	TRUE	TRUE	FALSE	Miocamycin	Miocamycine	Miocamycin	Miocamicina	Miocamycine	Miocamicina	Miocamycin	Miocamycin	Миокамицин
+Moxifloxacin	FALSE	TRUE	TRUE	FALSE	Moxifloxacin	Moxifloxacine	Moxifloxacina	Moxifloxacin	Moxifloxacine	Moxifloxacina	Moxifloxacin	Moxifloxacin	Моксифлоксацин
+Mupirocin	FALSE	TRUE	TRUE	FALSE	Mupirocin	Mupirocine	Mupirocina	Mupirocina	Mupirocine	Mupirocina	Mupirocin	Mupirocin	Мупироцин
+Nalidixic acid	FALSE	TRUE	TRUE	FALSE	Nalidixinsäure	Nalidixinezuur	Ácido nalidíxico	Acido nalidixico	Acide nalidixique	Ácido nalidíxico	Nalidixinsyre	Nalidixinsyra	Налидиксовая кислота
+Neomycin	FALSE	TRUE	TRUE	FALSE	Neomycin	Neomycine	Neomicina	Neomicina	Néomycine	Neomicina	Neomycin	Neomycin	Неомицин
+Netilmicin	FALSE	TRUE	TRUE	FALSE	Netilmicin	Netilmicine	Netilmicina	Netilmicin	Netilmicine	Netilmicin	Netilmicin	Netilmicin	Нетилмицин
+Nitrofurantoin	FALSE	TRUE	TRUE	FALSE	Nitrofurantoin	Nitrofurantoine	Nitrofurantoína	Nitrofurantoina	Nitrofurantoïne	Nitrofurantoína	Nitrofurantoin	Nitrofurantoin	Нитрофурантоин
+Norfloxacin	FALSE	TRUE	TRUE	FALSE	Norfloxacin	Norfloxacine	Norfloxacina	Norfloxacina	Norfloxacine	Norfloxacin	Norfloxacin	Norfloxacin	Норфлоксацин
+Novobiocin	FALSE	TRUE	TRUE	FALSE	Novobiocin	Novobiocine	Novobiocina	Novobiocin	Novobiocine	Novobiocin	Novobiocin	Novobiocin	Новобиоцин
+Nystatin	FALSE	TRUE	TRUE	FALSE	Nystatin	Nystatine	Nistatina	Nystatin	Nystatine	Nystatin	Nystatin	Nystatin	Нистатин
+Ofloxacin	FALSE	TRUE	TRUE	FALSE	Ofloxacin	Ofloxacine	Ofloxacina	Ofloxacin	Ofloxacine	Ofloxacin	Ofloxacin	Ofloxacin	Офлоксацин
+Oleandomycin	FALSE	TRUE	TRUE	FALSE	Oleandomycin	Oleandomycine	Oleandomicina	Oleandomicina	Oleandomycine	Oleandomicina	Oleandomycin	Oleandomycin	Олеандомицин
+Ornidazole	FALSE	TRUE	TRUE	FALSE	Ornidazol	Ornidazol	Ornidazol	Ornidazolo	Ornidazole	Ornidazole	Ornidazol	Ornidazol	Орнидазол
+Oxacillin	FALSE	TRUE	TRUE	FALSE	Oxacillin	Oxacilline	Oxacilina	Oxacillina	Oxacilline	Oxacillin	Oxacillin	Oxacillin	Оксациллин
+Oxolinic acid	FALSE	TRUE	TRUE	FALSE	Oxolinsäure	Oxolinezuur	Ácido oxolínico	Acido ossolinico	Acide oxolinique	Ácido oxolínico	Oxolinsyre	Oxolinsyra	Оксолиновая кислота
+Oxytetracycline	FALSE	TRUE	TRUE	FALSE	Oxytetracyclin	Oxytetracycline	Oxitetraciclina	Ossitetraciclina	Oxytétracycline	Oxitetraciclina	Oxytetracyclin	Oxytetracyklin	Окситетрациклин
+Pazufloxacin	FALSE	TRUE	TRUE	FALSE	Pazufloxacin	Pazufloxacine	Pazufloxacina	Pazufloxacin	Pazufloxacine	Pazufloxacin	Pazufloxacin	Pazufloxacin	Пазуфлоксацин
+Pefloxacin	FALSE	TRUE	TRUE	FALSE	Pefloxacin	Pefloxacine	Pefloxacina	Pefloxacina	Péfloxacine	Pefloxacin	Pefloxacin	Pefloxacin	Пефлоксацин
+Penamecillin	FALSE	TRUE	TRUE	FALSE	Penamecillin	Penamecilline	Penamecilina	Penamecillina	Pénamécilline	Penamecilina	Penamecillin	Penamecillin	Пенамециллин
+Penicillin	FALSE	TRUE	TRUE	FALSE	Penicillin	Penicilline	Penicilina	Penicillina	Pénicilline	Penicilina	Penicillin	Penicillin	Пенициллин
+Pheneticillin	FALSE	TRUE	TRUE	FALSE	Pheneticillin	Feneticilline	Feneticilina	Feneticillina	Phénéticilline	Pheneticillin	Pheneticillin	Feneticillin	Фенетициллин
+Phenoxymethylpenicillin	FALSE	TRUE	TRUE	FALSE	Phenoxymethylpenicillin	Fenoxymethylpenicilline	Fenoximetilpenicilina	Fenossimetilpenicillina	Phénoxyméthylpénicilline	Fenoximetilpenicilina	Phenoxymethylpenicillin	Fenoximetylpenicillin	Феноксиметилпенициллин
+Pipemidic acid	FALSE	TRUE	TRUE	FALSE	Pipemidinsäure	Pipemidinezuur	Ácido pipemídico	Acido pipemidico	Acide pipémidique	Ácido pipemídico	Pipemidinsyre	Pipemidinsyra	Пипемидовая кислота
+Piperacillin	FALSE	TRUE	TRUE	FALSE	Piperacillin	Piperacilline	Piperacilina	Piperacillina	Pipéracilline	Piperacilina	Piperacillin	Piperacillin	Пиперациллин
+Piperacillin/beta-lactamase inhibitor	FALSE	TRUE	TRUE	FALSE	Piperacillin/Beta-Lactamase-Hemmer	Piperacilline/enzymremmer	Piperacilina/inhib. de la beta-lactamasa	Piperacillina/inib. d. beta-lattamasi	Pipéracilline/inhib. de bêta-lactamase	Piperacilina/inibid. da beta-lactamase	Piperacillin/beta-lactamasehæmmer	Piperacillin/betalaktamashämmare	Пиперациллин/ингибитор бета-лактамазы
+Piromidic acid	FALSE	TRUE	TRUE	FALSE	Piromidinsäure	Piromidinezuur	Ácido piromídico	Acido piromidico	Acide piromidique	Ácido piromídico	Piromidinsyre	Piromidinsyra	Пиромидовая кислота
+Pivampicillin	FALSE	TRUE	TRUE	FALSE	Pivampicillin	Pivampicilline	Pivampicilina	Pivampicillina	Pivampicilline	Pivampicilina	Pivampicillin	Pivampicillin	Пивампициллин
+Polymyxin B	FALSE	TRUE	TRUE	FALSE	Polymyxin B	Polymyxine B	Polimixina B	Polimixina B	Polymyxine B	Polimixina B	Polymyxin B	Polymyxin B	Полимиксин В
+Posaconazole	FALSE	TRUE	TRUE	FALSE	Posaconazol	Posaconazol	Posaconazol	Posaconazolo	Posaconazole	Posaconazole	Posaconazol	Posakonazol	Посаконазол
+Pristinamycin	FALSE	TRUE	TRUE	FALSE	Pristinamycin	Pristinamycine	Pristinamicina	Pristinamicina	Pristinamycine	Pristinamicina	Pristinamycin	Pristinamycin	Пристинамицин
+Procaine benzylpenicillin	FALSE	TRUE	TRUE	FALSE	Procain-Benzylpenicillin	Benzylpenicillineprocaine	Bencilpenicilina procaína	Procaina benzilpenicillina	Procaïne benzylpénicilline	Procaína benzilpenicilina	Prokainbenzylpenicillin	Prokainbenzylpenicillin	Прокаин бензилпенициллин
+Propicillin	FALSE	TRUE	TRUE	FALSE	Propicillin	Propicilline	Propicilina	Propicillina	Propicilline	Propicilina	Propicillin	Propicillin	Пропициллин
+Prulifloxacin	FALSE	TRUE	TRUE	FALSE	Prulifloxacin	Prulifloxacine	Prulifloxacina	Prulifloxacina	Prulifloxacine	Prulifloxacina	Prulifloxacin	Prulifloxacin	Прулифлоксацин
+Quinupristin/dalfopristin	FALSE	TRUE	TRUE	FALSE	Quinupristin/Dalfopristin	Quinupristine/dalfopristine	Quinupristina/dalfopristina	Quinupristina/dalfopristina	Quinupristine/dalfopristine	Quinupristin/dalfopristin	Quinupristin/dalfopristin	Quinupristin/dalfopristin	Квинупристин/дальфопристин
+Ribostamycin	FALSE	TRUE	TRUE	FALSE	Ribostamycin	Ribostamycine	Ribostamicina	Ribostamicina	Ribostamycine	Ribostamicina	Ribostamycin	Ribostamycin	Рибостамицин
+Rifabutin	FALSE	TRUE	TRUE	FALSE	Rifabutin	Rifabutine	Rifabutina	Rifabutina	Rifabutine	Rifabutin	Rifabutin	Rifabutin	Рифабутин
+Rifampicin	FALSE	TRUE	TRUE	FALSE	Rifampicin	Rifampicine	Rifampicina	Rifampicina	Rifampicine	Rifampicina	Rifampicin	Rifampicin	Рифампицин
+Rifampicin/pyrazinamide/ethambutol/isoniazid	FALSE	TRUE	TRUE	FALSE	Rifampicin/Pyrazinamid/Ethambutol/Isoniazid	Rifampicine/pyrazinamide/ethambutol/isoniazide	Rifampicina/pirazinamida/etambutol/isoniazida	Rifampicina/pirazinamide/etambutolo/isoniazide	Rifampicine/pyrazinamide/éthambutol/isoniazide	Rifampicina/pirazinamida/etambutol/isoniazida	Rifampicin/pyrazinamid/ethambutol/isoniazid	Rifampicin/pyrazinamid/ethambutol/isoniazid	Рифампицин/пиразинамид/этамбутол/исониазид
+Rifampicin/pyrazinamide/isoniazid	FALSE	TRUE	TRUE	FALSE	Rifampicin/Pyrazinamid/Isoniazid	Rifampicine/pyrazinamide/isoniazide	Rifampicina/pirazinamida/isoniazida	Rifampicina/pirazinamide/isoniazide	Rifampicine/pyrazinamide/isoniazide	Rifampicina/pirazinamida/isoniazida	Rifampicin/pyrazinamid/isoniazid	Rifampicin/pyrazinamid/isoniazid	Рифампицин/пиразинамид/изониазид
+Rifampicin/isoniazid	FALSE	TRUE	TRUE	FALSE	Rifampicin/Isoniazid	Rifampicine/isoniazide	Rifampicina/isoniazida	Rifampicina/isoniazide	Rifampicine/isoniazide	Rifampicina/isoniazida	Rifampicin/isoniazid	Rifampicin/isoniazid	Рифампицин/изониазид
+Rifamycin	FALSE	TRUE	TRUE	FALSE	Rifamycin	Rifamycine	Rifamicina	Rifamicina	Rifamycine	Rifamycin	Rifamycin	Rifamycin	Рифамицин
+Rifaximin	FALSE	TRUE	TRUE	FALSE	Rifaximin	Rifaximine	Rifaximina	Rifaximina	Rifaximine	Rifaximin	Rifaximin	Rifaximin	Рифаксимин
+Rokitamycin	FALSE	TRUE	TRUE	FALSE	Rokitamycin	Rokitamycine	Rokitamicina	Rokitamicina	Rokitamycine	Rokitamycin	Rokitamycin	Rokitamycin	Рокитамицин
+Rosoxacin	FALSE	TRUE	TRUE	FALSE	Rosoxacin	Rosoxacine	Rosoxacina	Rosoxacina	Rosoxacine	Rosoxacina	Rosoxacin	Rosoxacin	Розоксацин
+Roxithromycin	FALSE	TRUE	TRUE	FALSE	Roxithromycin	Roxitromycine	Roxitromicina	Roxitromicina	Roxithromycine	Roxitromicina	Roxithromycin	Roxitromycin	Рокситромицин
+Rufloxacin	FALSE	TRUE	TRUE	FALSE	Rufloxacin	Rufloxacine	Rufloxacina	Rufloxacina	Rufloxacine	Rufloxacin	Rufloxacin	Rufloxacin	Руфлоксацин
+Sisomicin	FALSE	TRUE	TRUE	FALSE	Sisomicin	Sisomicine	Sisomicina	Sisomicina	Sisomicine	Sisomicina	Sisomicin	Sisomicin	Сизомицин
+Sodium aminosalicylate	FALSE	TRUE	TRUE	FALSE	Natrium-Aminosalicylat	Aminosalicylzuur	Aminosalicilato de sodio	Sodio aminosalicilato	Aminosalicylate de sodium	Aminosalicilato de sódio	Natriumaminosalicylat	Natriumaminosalicylat	Аминосалицилат натрия
+Sparfloxacin	FALSE	TRUE	TRUE	FALSE	Sparfloxacin	Sparfloxacine	Esparfloxacina	Sparfloxacina	Sparfloxacine	Sparfloxacin	Sparfloxacin	Sparfloxacin	Спарфлоксацин
+Spectinomycin	FALSE	TRUE	TRUE	FALSE	Spectinomycin	Spectinomycine	Espectinomicina	Spectinomycin	Spectinomycine	Spectinomycin	Spectinomycin	Spektinomycin	Спектиномицин
+Spiramycin	FALSE	TRUE	TRUE	FALSE	Spiramycin	Spiramycine	Espiramicina	Spiramicina	Spiramycine	Spiramycin	Spiramycin	Spiramycin	Спирамицин
+Spiramycin/metronidazole	FALSE	TRUE	TRUE	FALSE	Spiramycin/Metronidazol	Spiramycine/metronidazol	Espiramicina/metronidazol	Spiramicina/metronidazolo	Spiramycine/métronidazole	Spiramycin/metronidazol	Spiramycin/metronidazol	Spiramycin/metronidazol	Спирамицин/метронидазол
+Staphylococcus immunoglobulin	FALSE	TRUE	TRUE	FALSE	Staphylococcus-Immunoglobulin	Stafylokokkenimmunoglobuline	Inmunoglobulina estafilocócica	Immunoglobulina per stafilococco	Immunoglobuline staphylococcique	Imunoglobulina de Staphylococcus	Stafylokok-immunglobulin	Immunoglobulin mot stafylokocker	Стафилококковый иммуноглобулин
+Streptoduocin	FALSE	TRUE	TRUE	FALSE	Streptoduocin	Streptoduocine	Estreptoduocina	Streptoduocin	Streptoduocine	Estreptoduocina	Streptoduocin	Streptoduocin	Стрептодуоцин
+Streptomycin	FALSE	TRUE	TRUE	FALSE	Streptomycin	Streptomycine	Estreptomicina	Streptomicina	Streptomycine	Streptomycin	Streptomycin	Streptomycin	Стрептомицин
+Streptomycin/isoniazid	FALSE	TRUE	TRUE	FALSE	Streptomycin/Isoniazid	Streptomycine/isoniazide	Estreptomicina/isoniazida	Streptomicina/isoniazide	Streptomycine/isoniazide	Streptomicina/isoniazida	Streptomycin/isoniazid	Streptomycin/isoniazid	Стрептомицин/изониазид
+Sulbenicillin	FALSE	TRUE	TRUE	FALSE	Sulbenicillin	Sulbenicilline	Sulbenicilina	Sulbenicillina	Sulbenicilline	Sulbenicilina	Sulbenicillin	Sulbenicillin	Сульбенициллин
+Sulfadiazine/tetroxoprim	FALSE	TRUE	TRUE	FALSE	Sulfadiazin/Tetroxoprim	Sulfadiazine/tetroxoprim	Sulfadiazina/tetroxoprim	Sulfadiazina/tetroxoprim	Sulfadiazine/tetroxoprime	Sulfadiazina/tetroxoprim	Sulfadiazin/tetroxoprim	Sulfadiazin/tetroxoprim	Сульфадиазин/тетроксоприм
+Sulfadiazine/trimethoprim	FALSE	TRUE	TRUE	FALSE	Sulfadiazin/Trimethoprim	Sulfadiazine/trimethoprim	Sulfadiazina/trimetoprima	Sulfadiazina/trimetoprim	Sulfadiazine/triméthoprime	Sulfadiazina/trimethoprim	Sulfadiazin/trimethoprim	Sulfadiazin/trimetoprim	Сульфадиазин/триметоприм
+Sulfadimidine/trimethoprim	FALSE	TRUE	TRUE	FALSE	Sulfadimidin/Trimethoprim	Sulfadimidine/trimethoprim	Sulfadimidina/trimetoprima	Sulfadimidina/trimetoprim	Sulfadimidine/triméthoprime	Sulfadimidina/trimethoprim	Sulfadimidin/trimethoprim	Sulfadimidin/trimetoprim	Сульфадимидин/триметоприм
+Sulfafurazole	FALSE	TRUE	TRUE	FALSE	Sulfafurazol	Sulfafurazol	Sulfafurazol	Sulfafurazolo	Sulfafurazole	Sulfafurazole	Sulfafurazol	Sulfafurazol	Сульфафуразол
+Sulfaisodimidine	FALSE	TRUE	TRUE	FALSE	Sulfaisodimidin	Sulfisomidine	Sulfaisodimidina	Sulfaisodimidina	Sulfaisodimidine	Sulfaisodimidina	Sulfaisodimidin	Sulfaisodimidin	Сульфаизодимидин
+Sulfalene	FALSE	TRUE	TRUE	FALSE	Sulfalene	Sulfaleen	Sulfaleno	Sulfalene	Sulfalène	Sulfaleno	Sulfalen	Sulfen	Сульфален
+Sulfamazone	FALSE	TRUE	TRUE	FALSE	Sulfamazon	Sulfamazon	Sulfamazona	Sulfamazone	Sulfamazone	Sulfamazona	Sulfamazon	Sulfamazon	Сульфамазон
+Sulfamerazine/trimethoprim	FALSE	TRUE	TRUE	FALSE	Sulfamerazin/Trimethoprim	Sulfamerazine/trimethoprim	Sulfamerazina/trimetoprima	Sulfamerazina/trimetoprim	Sulfamérazine/triméthoprime	Sulfamerazina/trimethoprim	Sulfamerazin/trimethoprim	Sulfamerazin/trimetoprim	Сульфамеразин/триметоприм
+Sulfamethizole	FALSE	TRUE	TRUE	FALSE	Sulfamethizol	Sulfamethizol	Sulfametozol	Sulfamethizolo	Sulfaméthizole	Sulfametizole	Sulfamethizol	Sulfamethizol	Сульфаметизол
+Sulfamethoxazole	FALSE	TRUE	TRUE	FALSE	Sulfamethoxazol	Sulfamethoxazol	Sulfametoxazol	Sulfametossazolo	Sulfaméthoxazole	Sulfamethoxazole	Sulfamethoxazol	Sulfametoxazol	Сульфаметоксазол
+Sulfamethoxazole/trimethoprim	FALSE	TRUE	TRUE	FALSE	Sulfamethoxazol/Trimethoprim	Sulfamethoxazol/trimethoprim	Sulfametoxazol/trimetoprima	Sulfametossazolo/trimetoprim	Sulfaméthoxazole/triméthoprime	Sulfametoxazol/trimethoprim	Sulfamethoxazol/trimethoprim	Sulfametoxazol/trimetoprim	Сульфаметоксазол/триметоприм
+Sulfametoxydiazine	FALSE	TRUE	TRUE	FALSE	Sulfametoxydiazin	Sulfamethoxydiazine	Sulfametoxidiazina	Sulfametoxydiazine	Sulfamétoxydiazine	Sulfametoxidiazina	Sulfametoxydiazin	Sulfametoxydiazin	Сульфаметоксидиазин
+Sulfametrole/trimethoprim	FALSE	TRUE	TRUE	FALSE	Sulfametrole/Trimethoprim	Sulfametrol/trimethoprim	Sulfametrol/trimetoprima	Sulfametrole/trimetoprim	Sulfamétrole/triméthoprime	Sulfametrole/trimethoprim	Sulfametrol/trimethoprim	Sulfametrol/trimetoprim	Сульфаметрол/триметоприм
+Sulfamoxole	FALSE	TRUE	TRUE	FALSE	Sulfamoxol	Sulfamoxol	Sulfamoxole	Sulfamoxolo	Sulfamoxole	Sulfamoxole	Sulfamoxol	Sulfamoxol	Сульфамоксол
+Sulfamoxole/trimethoprim	FALSE	TRUE	TRUE	FALSE	Sulfamoxol/Trimethoprim	Sulfamoxol/trimethoprim	Sulfamoxol/trimetoprima	Sulfamoxolo/trimetoprim	Sulfamoxole/triméthoprime	Sulfamoxole/trimethoprim	Sulfamoxol/trimethoprim	Sulfamoxol/trimetoprim	Сульфамоксол/триметоприм
+Sulfaperin	FALSE	TRUE	TRUE	FALSE	Sulfaperin	Sulfaperine	Sulfametoxazol	Sulfaperin	Sulfapérine	Sulfaperin	Sulfaperin	Sulfaperin	Сульфаперин
+Sulfaphenazole	FALSE	TRUE	TRUE	FALSE	Sulfaphenazol	Sulfafenazol	Sulfafenazol	Sulfafenazolo	Sulfaphénazole	Sulfafenazol	Sulfaphenazol	Sulfafenazol	Сульфафеназол
+Sulfathiazole	FALSE	TRUE	TRUE	FALSE	Sulfathiazol	Sulfathiazol	Sulfatiazol	Sulfathiazole	Sulfathiazole	Sulfatazol	Sulfathiazol	Sulfathiazol	Сульфатиазол
+Sulfathiourea	FALSE	TRUE	TRUE	FALSE	Sulfathioharnstoff	Sulfathioureum	Sulfathiourea	Sulfathiourea	Sulfathiourée	Sulfathiourea	Sulfathiourea	Sulfatiourea	Сульфатиомочевина
+Sultamicillin	FALSE	TRUE	TRUE	FALSE	Sultamicillin	Sultamicilline	Sultamicilina	Sultamicillina	Sultamicilline	Sultamicillin	Sultamicillin	Sultamicillin	Сультамициллин
+Talampicillin	FALSE	TRUE	TRUE	FALSE	Talampicillin	Talampicilline	Talampicilina	Talampicillina	Talampicilline	Talampicilina	Talampicillin	Talampicillin	Талампициллин
+Teicoplanin	FALSE	TRUE	TRUE	FALSE	Teicoplanin	Teicoplanine	Teicoplanina	Teicoplanina	Teicoplanine	Teicoplanin	Teicoplanin	Teicoplanin	Тейкопланин
+Telithromycin	FALSE	TRUE	TRUE	FALSE	Telithromycin	Telitromycine	Telitromicina	Telitromicina	Télithromycine	Telitromicina	Telithromycin	Telitromycin	Телитромицин
+Temafloxacin	FALSE	TRUE	TRUE	FALSE	Temafloxacin	Temafloxacine	Temafloxacina	Temafloxacina	Temafloxacine	Temafloxacin	Temafloxacin	Temafloxacin	Темафлоксацин
+Temocillin	FALSE	TRUE	TRUE	FALSE	Temocillin	Temocilline	Temocilina	Temocillina	Temocillin	Temocillin	Temocillin	Temocillin	Темоциллин
+Tenofovir disoproxil	FALSE	TRUE	TRUE	FALSE	Tenofovir Disoproxil	Tenofovir	Tenofovir disoproxil	Tenofovir disoproxil	Tenofovir disoproxil	Tenofovir disoproxil	Tenofovir disoproxil	Tenofovir disoproxil	Тенофовир дизопроксил
+Terizidone	FALSE	TRUE	TRUE	FALSE	Terizidon	Terizidon	Terizidona	Terizidone	Terizidone	Terizidone	Terizidon	Terizidon	Теризидон
+Thiamphenicol	FALSE	TRUE	TRUE	FALSE	Thiamphenicol	Thiamfenicol	Tiamfenicol	Tiamfenicolo	Thiamphénicol	Tiamfenicol	Thiamphenicol	Tiamfenikol	Тиамфеникол
+Thioacetazone/isoniazid	FALSE	TRUE	TRUE	FALSE	Thioacetazon/Isoniazid	Thioacetazon/isoniazide	Tioacetazona/isoniazida	Tioacetazone/isoniazide	Thioacétazone/isoniazide	Thioacetazone/isoniazid	Thioacetazon/isoniazid	Thioacetazon/isoniazid	Тиоацетазон/изониазид
+Ticarcillin	FALSE	TRUE	TRUE	FALSE	Ticarcillin	Ticarcilline	Ticarcilina	Ticarcillina	Ticarcilline	Ticarcilina	Ticarcillin	Ticarcillin	Тикарциллин
+Ticarcillin/beta-lactamase inhibitor	FALSE	TRUE	TRUE	FALSE	Ticarcillin/Beta-Lactamase-Hemmer	Ticarcilline/enzymremmer	Ticarcilina/inhib. de la betalactamasa	Ticarcillina/inib. d. beta-lattamasi	Ticarcilline/inhib. de bêta-lactamase	Ticarcilina/inibid. da beta-lactamase	Ticarcillin/beta-lactamasehæmmer	Ticarcillin/beta-laktamashämmare	Тикарциллин/ингибитор бета-лактамазы
+Ticarcillin/clavulanic acid	FALSE	TRUE	TRUE	FALSE	Ticarcillin/Clavulansäure	Ticarcilline/clavulaanzuur	Ticarcilina/ácido clavulánico	Ticarcillina/acido clavulanico	Ticarcilline/acide clavulanique	Ticarcilina/ácido clavulanico	Ticarcillin/clavulansyre	Ticarcillin/clavulansyra	Тикарциллин/клавулановая кислота
+Tinidazole	FALSE	TRUE	TRUE	FALSE	Tinidazol	Tinidazol	Tinidazol	Tinidazolo	Tinidazole	Tinidazole	Tinidazol	Tinidazol	Тинидазол
+Tobramycin	FALSE	TRUE	TRUE	FALSE	Tobramycin	Tobramycine	Tobramicina	Tobramicina	Tobramycine	Tobramycin	Tobramycin	Tobramycin	Тобрамицин
+Trimethoprim/sulfamethoxazole	FALSE	TRUE	TRUE	FALSE	Trimethoprim/Sulfamethoxazol	Cotrimoxazol	Trimetoprima/sulfametoxazol	Trimetoprim/sulfametossazolo	Triméthoprime/sulfaméthoxazole	Trimethoprim/sulfametoxazol	Trimethoprim/sulfamethoxazol	Trimetoprim/sulfametoxazol	Триметоприм/сульфаметоксазол
+Troleandomycin	FALSE	TRUE	TRUE	FALSE	Troleandomycin	Troleandomycine	Troleandomicina	Troleandomicina	Troleandomycine	Troleandomicina	Troleandomycin	Troleandomycin	Тролеандомицин
+Trovafloxacin	FALSE	TRUE	TRUE	FALSE	Trovafloxacin	Trovafloxacine	Trovafloxacina	Trovafloxacin	Trovafloxacine	Trovafloxacin	Trovafloxacin	Trovafloxacin	Тровафлоксацин
+Vancomycin	FALSE	TRUE	TRUE	FALSE	Vancomycin	Vancomycine	Vancomicina	Vancomicina	Vancomycine	Vancomycin	Vancomycin	Vancomycin	Ванкомицин
+Voriconazole	FALSE	TRUE	TRUE	FALSE	Voriconazol	Voriconazol	Voriconazol	Voriconazolo	Voriconazole	Voriconazol	Voriconazol	Vorikonazol	Вориконазол
+Aminoglycosides	FALSE	TRUE	TRUE	FALSE	Aminoglykoside	Aminoglycosiden	Aminoglucósidos	Aminoglicosidi	Aminoglycosides	Aminoglycosides	Aminoglykosider	Aminoglykosider	Аминогликозиды
+Amphenicols	FALSE	TRUE	TRUE	FALSE	Amphenicole	Amfenicolen	Anfenicoles	Amphenicols	Amphénicols	Anfenicóis	Amphenicoler	Amfenikoler	Амфениколы
+Antifungals/antimycotics	FALSE	TRUE	TRUE	FALSE	Antimykotika/Antimykotika	Antifungica/antimycotica	Antifúngicos/antimicóticos	Antifungini/antimicotici	Antifongiques/antimycotiques	Antifúngicos/antimicóticos	Antimykotika/antimykotika	Antimykotika/antimykotika	Противогрибковые препараты/антимикотики
+Antimycobacterials	FALSE	TRUE	TRUE	FALSE	Antimykobakterielle Mittel	Antimycobacteriele middelen	Antimicrobianos	Antimicobatterici	Antimycobactériens	Antimycobacterials	Antimycobakterier	Antimykobakterier	Антимикобактериальные препараты
+Beta-lactams/penicillins	FALSE	TRUE	TRUE	FALSE	Beta-Lactame/Penicilline	Beta-lactams/penicillines	Beta-lactámicos/penicilinas	Beta-lattami/penicilline	Bêta-lactamines/pénicillines	Beta-lactâmicas/penicilinas	Beta-lactamer/penicilliner	Beta-laktamer/penicilliner	Бета-лактамы/пенициллины
+Cephalosporins (1st gen.)	FALSE	TRUE	TRUE	FALSE	Cephalosporine (1. Gen.)	Cefalosporines (1e gen.)	Cefalosporinas (1er gen.)	Cefalosporine (1° gen.)	Céphalosporines (1ère génération)	Cefalosporinas (1º género)	Cefalosporiner (1. gen.)	Kefalosporiner (första gen.)	Цефалоспорины (1-го пок.)
+Cephalosporins (2nd gen.)	FALSE	TRUE	TRUE	FALSE	Cephalosporine (2. Gen.)	Cefalosporines (2e gen.)	Cefalosporinas (2do gen.)	Cefalosporine (2° gen.)	Céphalosporines (2ème génération)	Cefalosporinas (2ª gen.)	Cefalosporiner (2. gen.)	Kefalosporiner (andra gen.)	Цефалоспорины (2-го пок.)
+Cephalosporins (3rd gen.)	FALSE	TRUE	TRUE	FALSE	Cephalosporine (3. Gen.)	Cefalosporines (3e gen.)	Cefalosporinas (3er gen.)	Cefalosporine (3° gen.)	Céphalosporines (3ème génération)	Cefalosporinas (3ª gen.)	Cefalosporiner (3. gen.)	Kefalosporiner (tredje gen.)	Цефалоспорины (3-го пок.)
+Cephalosporins (4th gen.)	FALSE	TRUE	TRUE	FALSE	Cephalosporine (4. Gen.)	Cefalosporines (4e gen.)	Cefalosporinas (4ª gen.)	Cefalosporine (4° gen.)	Céphalosporines (4ème génération)	Cefalosporinas (4.ª gen.)	Cefalosporiner (4. gen.)	Kefalosporiner (4:e gen.)	Цефалоспорины (4-го пок.)
+Cephalosporins (5th gen.)	FALSE	TRUE	TRUE	FALSE	Cephalosporine (5. Gen.)	Cefalosporines (5e gen.)	Cefalosporinas (5º gen.)	Cefalosporine (5° gen.)	Céphalosporines (5e gén.)	Cefalosporinas (5.ª gen.)	Cefalosporiner (5. gen.)	Kefalosporiner (5:e gen.)	Цефалоспорины (5-го пок.)
+Cephalosporins (unclassified gen.)	FALSE	TRUE	TRUE	FALSE	Cephalosporine (unklassifiziert)	Cefalosporines (ongeclassificeerd)	Cefalosporinas (gen. no clasificado)	Cefalosporine (gen. non classificato)	Céphalosporines (genre non classifié)	Cefalosporinas (não classificado gen.)	Cefalosporiner (uklassificeret gen.)	Kefalosporiner (oklassificerad gen.)	Цефалоспорины (неклассифицированный род)
+Cephalosporins	FALSE	TRUE	TRUE	FALSE	Cephalosporine	Cefalosporines	Cefalosporinas	Cefalosporine	Céphalosporines	Cefalosporinas	Cefalosporiner	Kefalosporiner	Цефалоспорины
+Glycopeptides	FALSE	TRUE	TRUE	FALSE	Glykopeptide	Glycopeptiden	Glicopéptidos	Glicopeptidi	Glycopeptides	Glycopeptides	Glykopeptider	Glykopeptider	Гликопептиды
+Macrolides/lincosamides	FALSE	TRUE	TRUE	FALSE	Makrolide/Linkosamide	Macroliden/lincosamiden	Macrólidos/lincosamidas	Macrolidi/lincosamidi	Macrolides/lincosamides	Macrolides/lincosamidas	Makrolider/lincosamider	Makrolider/linkosamider	Макролиды/линкозамиды
+Other antibacterials	FALSE	TRUE	TRUE	FALSE	Andere Antibiotika	Overige antibiotica	Otros antibacterianos	Altri antibatterici	Autres antibactériens	Outros antibacterianos	Andre antibakterielle stoffer	Andra antibakteriella medel	Другие антибактериальные препараты
+Polymyxins	FALSE	TRUE	TRUE	FALSE	Polymyxine	Polymyxines	Polimixinas	Polimixine	Polymyxines	Polimixinas	Polymyxiner	Polymyxiner	Полимиксины
+Quinolones	FALSE	TRUE	TRUE	FALSE	Quinolone	Quinolonen	Quinolonas	Chinoloni	Quinolones	Quinolones	Kinoloner	Kinoloner	Хинолоны

docs/404.html

@@ -19,7 +19,7 @@
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+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
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docs/LICENSE-text.html

@@ -1,5 +1,5 @@
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+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
       </span>
     </div>
 

docs/articles/EUCAST.html

@@ -20,7 +20,7 @@
 <script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet">
 <script src="../extra.js"></script><meta property="og:title" content="How to apply EUCAST rules">
 <meta property="og:description" content="AMR">
-<meta property="og:image" content="https://msberends.github.io/AMR/logo.png">
+<meta property="og:image" content="https://msberends.github.io/AMR/logo.svg">
 <meta name="twitter:card" content="summary_large_image">
 <meta name="twitter:creator" content="@msberends">
 <meta name="twitter:site" content="@univgroningen">
@@ -44,7 +44,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9062</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 

docs/articles/MDR.html

@@ -20,7 +20,7 @@
 <script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet">
 <script src="../extra.js"></script><meta property="og:title" content="How to determine multi-drug resistance (MDR)">
 <meta property="og:description" content="AMR">
-<meta property="og:image" content="https://msberends.github.io/AMR/logo.png">
+<meta property="og:image" content="https://msberends.github.io/AMR/logo.svg">
 <meta name="twitter:card" content="summary_large_image">
 <meta name="twitter:creator" content="@msberends">
 <meta name="twitter:site" content="@univgroningen">
@@ -44,7 +44,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9062</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 
@@ -358,16 +358,16 @@ Unique: 2</p>
 <div class="sourceCode" id="cb8"><pre class="downlit sourceCode r">
 <code class="sourceCode R"><span class="fu"><a href="https://rdrr.io/r/utils/head.html" class="external-link">head</a></span><span class="op">(</span><span class="va">my_TB_data</span><span class="op">)</span>
 <span class="co">#   rifampicin isoniazid gatifloxacin ethambutol pyrazinamide moxifloxacin</span>
-<span class="co"># 1          R         I            I          R            I            I</span>
-<span class="co"># 2          S         S            S          S            I            S</span>
-<span class="co"># 3          S         I            I          S            S            I</span>
-<span class="co"># 4          R         I            S          R            R            R</span>
-<span class="co"># 5          R         S            R          R            I            I</span>
-<span class="co"># 6          I         S            R          S            I            S</span>
+<span class="co"># 1          R         R            I          S            I            I</span>
+<span class="co"># 2          I         I            I          I            R            S</span>
+<span class="co"># 3          I         R            S          I            R            S</span>
+<span class="co"># 4          R         S            I          I            I            R</span>
+<span class="co"># 5          S         S            R          I            I            S</span>
+<span class="co"># 6          R         R            R          I            S            R</span>
 <span class="co">#   kanamycin</span>
 <span class="co"># 1         I</span>
-<span class="co"># 2         I</span>
-<span class="co"># 3         R</span>
+<span class="co"># 2         R</span>
+<span class="co"># 3         S</span>
 <span class="co"># 4         R</span>
 <span class="co"># 5         R</span>
 <span class="co"># 6         R</span></code></pre></div>
@@ -413,32 +413,32 @@ Unique: 5</p>
 <tr class="odd">
 <td align="left">1</td>
 <td align="left">Mono-resistant</td>
-<td align="right">3230</td>
-<td align="right">64.60%</td>
-<td align="right">3230</td>
-<td align="right">64.60%</td>
+<td align="right">3246</td>
+<td align="right">64.92%</td>
+<td align="right">3246</td>
+<td align="right">64.92%</td>
 </tr>
 <tr class="even">
 <td align="left">2</td>
 <td align="left">Negative</td>
-<td align="right">984</td>
-<td align="right">19.68%</td>
-<td align="right">4214</td>
-<td align="right">84.28%</td>
+<td align="right">999</td>
+<td align="right">19.98%</td>
+<td align="right">4245</td>
+<td align="right">84.90%</td>
 </tr>
 <tr class="odd">
 <td align="left">3</td>
 <td align="left">Multi-drug-resistant</td>
-<td align="right">445</td>
-<td align="right">8.90%</td>
-<td align="right">4659</td>
-<td align="right">93.18%</td>
+<td align="right">437</td>
+<td align="right">8.74%</td>
+<td align="right">4682</td>
+<td align="right">93.64%</td>
 </tr>
 <tr class="even">
 <td align="left">4</td>
 <td align="left">Poly-resistant</td>
-<td align="right">241</td>
-<td align="right">4.82%</td>
+<td align="right">218</td>
+<td align="right">4.36%</td>
 <td align="right">4900</td>
 <td align="right">98.00%</td>
 </tr>

docs/articles/PCA.html

@@ -20,7 +20,7 @@
 <script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet">
 <script src="../extra.js"></script><meta property="og:title" content="How to conduct principal component analysis (PCA) for AMR">
 <meta property="og:description" content="AMR">
-<meta property="og:image" content="https://msberends.github.io/AMR/logo.png">
+<meta property="og:image" content="https://msberends.github.io/AMR/logo.svg">
 <meta name="twitter:card" content="summary_large_image">
 <meta name="twitter:creator" content="@msberends">
 <meta name="twitter:site" content="@univgroningen">
@@ -44,7 +44,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9062</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 

docs/articles/SPSS.html

@@ -20,7 +20,7 @@
 <script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet">
 <script src="../extra.js"></script><meta property="og:title" content="How to import data from SPSS / SAS / Stata">
 <meta property="og:description" content="AMR">
-<meta property="og:image" content="https://msberends.github.io/AMR/logo.png">
+<meta property="og:image" content="https://msberends.github.io/AMR/logo.svg">
 <meta name="twitter:card" content="summary_large_image">
 <meta name="twitter:creator" content="@msberends">
 <meta name="twitter:site" content="@univgroningen">
@@ -44,7 +44,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9064</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 
@@ -191,7 +191,7 @@
       <h1 data-toc-skip>How to import data from SPSS / SAS / Stata</h1>
                         <h4 data-toc-skip class="author">Dr. Matthijs Berends</h4>
             
-            <h4 data-toc-skip class="date">11 December 2021</h4>
+            <h4 data-toc-skip class="date">12 December 2021</h4>
       
       <small class="dont-index">Source: <a href="https://github.com/msberends/AMR/blob/HEAD/vignettes/SPSS.Rmd" class="external-link"><code>vignettes/SPSS.Rmd</code></a></small>
       <div class="hidden name"><code>SPSS.Rmd</code></div>

docs/articles/WHONET.html

@@ -20,7 +20,7 @@
 <script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet">
 <script src="../extra.js"></script><meta property="og:title" content="How to work with WHONET data">
 <meta property="og:description" content="AMR">
-<meta property="og:image" content="https://msberends.github.io/AMR/logo.png">
+<meta property="og:image" content="https://msberends.github.io/AMR/logo.svg">
 <meta name="twitter:card" content="summary_large_image">
 <meta name="twitter:creator" content="@msberends">
 <meta name="twitter:site" content="@univgroningen">
@@ -44,7 +44,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9062</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 

docs/articles/benchmarks.html

@@ -20,7 +20,7 @@
 <script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet">
 <script src="../extra.js"></script><meta property="og:title" content="Benchmarks">
 <meta property="og:description" content="AMR">
-<meta property="og:image" content="https://msberends.github.io/AMR/logo.png">
+<meta property="og:image" content="https://msberends.github.io/AMR/logo.svg">
 <meta name="twitter:card" content="summary_large_image">
 <meta name="twitter:creator" content="@msberends">
 <meta name="twitter:site" content="@univgroningen">
@@ -44,7 +44,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9062</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 
@@ -224,19 +224,19 @@
   times <span class="op">=</span> <span class="fl">25</span><span class="op">)</span>
 <span class="fu"><a href="https://docs.ropensci.org/skimr/reference/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">S.aureus</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">2</span><span class="op">)</span>
 <span class="co"># Unit: milliseconds</span>
-<span class="co">#                                   expr   min  lq  mean median    uq   max neval</span>
-<span class="co">#                           as.mo("sau")  12.0  13  18.0   14.0  15.0  45.0    25</span>
-<span class="co">#                          as.mo("stau")  55.0  61  79.0   87.0  91.0  99.0    25</span>
-<span class="co">#                          as.mo("STAU")  55.0  58  71.0   61.0  91.0 100.0    25</span>
-<span class="co">#                        as.mo("staaur")  11.0  12  20.0   14.0  25.0  46.0    25</span>
-<span class="co">#                        as.mo("STAAUR")  12.0  12  13.0   13.0  14.0  15.0    25</span>
-<span class="co">#                     as.mo("S. aureus")  27.0  30  43.0   34.0  58.0  62.0    25</span>
-<span class="co">#                      as.mo("S aureus")  26.0  28  43.0   32.0  59.0  66.0    25</span>
-<span class="co">#         as.mo("Staphylococcus aureus")   3.7   4   4.3    4.1   4.6   5.3    25</span>
-<span class="co">#  as.mo("Staphylococcus aureus (MRSA)") 250.0 250 280.0  280.0 290.0 390.0    25</span>
-<span class="co">#       as.mo("Sthafilokkockus aaureuz") 190.0 200 210.0  210.0 220.0 230.0    25</span>
-<span class="co">#                          as.mo("MRSA")  10.0  12  18.0   14.0  14.0  43.0    25</span>
-<span class="co">#                          as.mo("VISA")  19.0  22  29.0   24.0  26.0  55.0    25</span></code></pre></div>
+<span class="co">#                                   expr   min    lq  mean median  uq max neval</span>
+<span class="co">#                           as.mo("sau")  12.0  14.0  24.0   15.0  42  64    25</span>
+<span class="co">#                          as.mo("stau")  49.0  62.0  79.0   77.0  98 120    25</span>
+<span class="co">#                          as.mo("STAU")  53.0  59.0  76.0   66.0  92 120    25</span>
+<span class="co">#                        as.mo("staaur")  12.0  14.0  19.0   15.0  17  53    25</span>
+<span class="co">#                        as.mo("STAAUR")  12.0  13.0  18.0   14.0  16  54    25</span>
+<span class="co">#                     as.mo("S. aureus")  27.0  32.0  41.0   33.0  39  79    25</span>
+<span class="co">#                      as.mo("S aureus")  26.0  31.0  45.0   34.0  67  79    25</span>
+<span class="co">#         as.mo("Staphylococcus aureus")   3.7   4.4   8.8    4.7   5  45    25</span>
+<span class="co">#  as.mo("Staphylococcus aureus (MRSA)") 250.0 260.0 280.0  280.0 300 330    25</span>
+<span class="co">#       as.mo("Sthafilokkockus aaureuz") 170.0 200.0 230.0  220.0 240 330    25</span>
+<span class="co">#                          as.mo("MRSA")  12.0  13.0  18.0   15.0  16  53    25</span>
+<span class="co">#                          as.mo("VISA")  21.0  26.0  44.0   33.0  62  78    25</span></code></pre></div>
 <p><img src="benchmarks_files/figure-html/unnamed-chunk-4-1.png" width="750"></p>
 <p>In the table above, all measurements are shown in milliseconds (thousands of seconds). A value of 5 milliseconds means it can determine 200 input values per second. It case of 200 milliseconds, this is only 5 input values per second. It is clear that accepted taxonomic names are extremely fast, but some variations are up to 200 times slower to determine.</p>
 <p>To improve performance, we implemented two important algorithms to save unnecessary calculations: <strong>repetitive results</strong> and <strong>already precalculated results</strong>.</p>
@@ -258,8 +258,8 @@
 <span class="co"># what do these values look like? They are of class &lt;mo&gt;:</span>
 <span class="fu"><a href="https://rdrr.io/r/utils/head.html" class="external-link">head</a></span><span class="op">(</span><span class="va">x</span><span class="op">)</span>
 <span class="co"># Class &lt;mo&gt;</span>
-<span class="co"># [1] B_STPHY_CONS B_STPHY_EPDR B_STPHY_CONS B_STRPT_PNMN B_STRPT_EQNS</span>
-<span class="co"># [6] B_STPHY_AURS</span>
+<span class="co"># [1] B_STPHY_EPDR B_STRPT_GRPA B_STPHY_AURS F_CANDD_GLBR F_CANDD     </span>
+<span class="co"># [6] B_STRPT_ANGN</span>
   
 <span class="co"># as the example_isolates data set has 2,000 rows, we should have 2 million items</span>
 <span class="fu"><a href="https://rdrr.io/r/base/length.html" class="external-link">length</a></span><span class="op">(</span><span class="va">x</span><span class="op">)</span>
@@ -275,8 +275,8 @@
 <span class="fu"><a href="https://docs.ropensci.org/skimr/reference/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">run_it</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">3</span><span class="op">)</span>
 <span class="co"># Unit: milliseconds</span>
 <span class="co">#        expr min  lq mean median  uq max neval</span>
-<span class="co">#  mo_name(x) 190 204  271    259 346 372    10</span></code></pre></div>
-<p>So getting official taxonomic names of 2,000,000 (!!) items consisting of 90 unique values only takes 0.259 seconds. That is 130 nanoseconds on average. You only lose time on your unique input values.</p>
+<span class="co">#  mo_name(x) 232 245  327    353 384 449    10</span></code></pre></div>
+<p>So getting official taxonomic names of 2,000,000 (!!) items consisting of 90 unique values only takes 0.353 seconds. That is 177 nanoseconds on average. You only lose time on your unique input values.</p>
 </div>
 <div class="section level3">
 <h3 id="precalculated-results">Precalculated results<a class="anchor" aria-label="anchor" href="#precalculated-results"></a>
@@ -289,11 +289,11 @@
                          times <span class="op">=</span> <span class="fl">10</span><span class="op">)</span>
 <span class="fu"><a href="https://docs.ropensci.org/skimr/reference/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">run_it</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">3</span><span class="op">)</span>
 <span class="co"># Unit: milliseconds</span>
-<span class="co">#  expr   min    lq  mean median    uq   max neval</span>
-<span class="co">#     A  8.16  8.77  9.77  10.10 10.60 10.90    10</span>
-<span class="co">#     B 23.20 26.60 32.00  27.50 28.90 76.30    10</span>
-<span class="co">#     C  2.01  2.24  2.44   2.44  2.67  2.91    10</span></code></pre></div>
-<p>So going from <code>mo_name("Staphylococcus aureus")</code> to <code>"Staphylococcus aureus"</code> takes 0.0024 seconds - it doesn’t even start calculating <em>if the result would be the same as the expected resulting value</em>. That goes for all helper functions:</p>
+<span class="co">#  expr   min    lq  mean median    uq  max neval</span>
+<span class="co">#     A  8.02  9.04  9.19   9.33  9.65 10.0    10</span>
+<span class="co">#     B 24.00 26.60 33.10  27.50 27.80 78.7    10</span>
+<span class="co">#     C  2.20  2.41  7.64   2.57  2.66 53.6    10</span></code></pre></div>
+<p>So going from <code>mo_name("Staphylococcus aureus")</code> to <code>"Staphylococcus aureus"</code> takes 0.0026 seconds - it doesn’t even start calculating <em>if the result would be the same as the expected resulting value</em>. That goes for all helper functions:</p>
 <div class="sourceCode" id="cb5"><pre class="downlit sourceCode r">
 <code class="sourceCode R"><span class="va">run_it</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/pkg/microbenchmark/man/microbenchmark.html" class="external-link">microbenchmark</a></span><span class="op">(</span>A <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_species</a></span><span class="op">(</span><span class="st">"aureus"</span><span class="op">)</span>,
                          B <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_genus</a></span><span class="op">(</span><span class="st">"Staphylococcus"</span><span class="op">)</span>,
@@ -307,14 +307,14 @@
 <span class="fu"><a href="https://docs.ropensci.org/skimr/reference/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">run_it</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">3</span><span class="op">)</span>
 <span class="co"># Unit: milliseconds</span>
 <span class="co">#  expr  min   lq mean median   uq  max neval</span>
-<span class="co">#     A 1.57 1.61 1.69   1.65 1.77 1.91    10</span>
-<span class="co">#     B 1.54 1.59 1.73   1.64 1.84 2.19    10</span>
-<span class="co">#     C 1.56 1.63 1.76   1.75 1.77 2.11    10</span>
-<span class="co">#     D 1.58 1.59 1.73   1.65 1.66 2.62    10</span>
-<span class="co">#     E 1.55 1.62 1.70   1.66 1.72 2.13    10</span>
-<span class="co">#     F 1.58 1.62 1.81   1.72 1.81 2.61    10</span>
-<span class="co">#     G 1.54 1.65 1.73   1.69 1.71 2.32    10</span>
-<span class="co">#     H 1.58 1.65 1.80   1.74 1.84 2.24    10</span></code></pre></div>
+<span class="co">#     A 1.52 1.69 2.40   1.92 3.43 4.28    10</span>
+<span class="co">#     B 1.37 1.39 1.83   1.70 1.74 3.61    10</span>
+<span class="co">#     C 1.41 1.72 2.17   2.00 2.51 3.34    10</span>
+<span class="co">#     D 1.39 1.43 1.63   1.61 1.73 2.10    10</span>
+<span class="co">#     E 1.40 1.71 1.82   1.75 2.13 2.26    10</span>
+<span class="co">#     F 1.36 1.40 1.70   1.66 1.93 2.27    10</span>
+<span class="co">#     G 1.38 1.68 2.32   1.71 3.56 4.41    10</span>
+<span class="co">#     H 1.36 1.64 2.06   1.69 2.25 3.59    10</span></code></pre></div>
 <p>Of course, when running <code>mo_phylum("Firmicutes")</code> the function has zero knowledge about the actual microorganism, namely <em>S. aureus</em>. But since the result would be <code>"Firmicutes"</code> anyway, there is no point in calculating the result. And because this package contains all phyla of all known bacteria, it can just return the initial value immediately.</p>
 </div>
 <div class="section level3">
@@ -342,13 +342,13 @@
 <span class="fu"><a href="https://docs.ropensci.org/skimr/reference/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">run_it</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">4</span><span class="op">)</span>
 <span class="co"># Unit: milliseconds</span>
 <span class="co">#  expr   min    lq  mean median    uq    max neval</span>
-<span class="co">#    en 19.38 19.92 23.08  20.50 21.40  67.58   100</span>
-<span class="co">#    de 30.74 31.50 39.35  32.08 33.43 201.20   100</span>
-<span class="co">#    nl 34.89 35.54 43.82  36.15 37.79  86.27   100</span>
-<span class="co">#    es 34.62 35.30 42.36  35.99 37.61  90.39   100</span>
-<span class="co">#    it 33.42 34.36 41.50  35.13 36.40  84.45   100</span>
-<span class="co">#    fr 32.86 33.35 38.69  34.20 35.26  82.96   100</span>
-<span class="co">#    pt 30.76 31.42 37.89  32.17 33.33  84.66   100</span></code></pre></div>
+<span class="co">#    en 18.80 19.08 23.94  19.62 21.69  83.41   100</span>
+<span class="co">#    de 30.37 30.79 39.01  31.75 35.07 112.40   100</span>
+<span class="co">#    nl 34.35 34.94 46.21  35.95 43.04 100.30   100</span>
+<span class="co">#    es 34.10 34.71 43.74  35.44 39.66 101.60   100</span>
+<span class="co">#    it 32.91 33.42 41.19  34.04 36.24 101.50   100</span>
+<span class="co">#    fr 32.18 32.87 42.84  33.76 40.21  92.48   100</span>
+<span class="co">#    pt 30.11 30.78 38.80  31.33 34.45  99.76   100</span></code></pre></div>
 <p>Currently supported non-English languages are German, Dutch, Spanish, Italian, French and Portuguese.</p>
 </div>
   </div>

docs/articles/datasets.html

@@ -20,7 +20,7 @@
 <script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet">
 <script src="../extra.js"></script><meta property="og:title" content="Data sets for download / own use">
 <meta property="og:description" content="AMR">
-<meta property="og:image" content="https://msberends.github.io/AMR/logo.png">
+<meta property="og:image" content="https://msberends.github.io/AMR/logo.svg">
 <meta name="twitter:card" content="summary_large_image">
 <meta name="twitter:creator" content="@msberends">
 <meta name="twitter:site" content="@univgroningen">
@@ -44,7 +44,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9066</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
       </span>
     </div>
 
@@ -190,7 +190,7 @@
     <div class="page-header toc-ignore">
       <h1 data-toc-skip>Data sets for download / own use</h1>
             
-            <h4 data-toc-skip class="date">11 December 2021</h4>
+            <h4 data-toc-skip class="date">12 December 2021</h4>
       
       <small class="dont-index">Source: <a href="https://github.com/msberends/AMR/blob/HEAD/vignettes/datasets.Rmd" class="external-link"><code>vignettes/datasets.Rmd</code></a></small>
       <div class="hidden name"><code>datasets.Rmd</code></div>
@@ -790,7 +790,7 @@ If you are reading this page from within R, please <a href="https://msberends.gi
 </h2>
 <p>A data set with 134,956 rows and 2 columns, containing the following column names:<br><em>microorganism</em> and <em>antibiotic</em>.</p>
 <p>This data set is in R available as <code>intrinsic_resistant</code>, after you load the <code>AMR</code> package.</p>
-<p>It was last updated on 11 December 2021 11:49:52 UTC. Find more info about the structure of this data set <a href="https://msberends.github.io/AMR/reference/intrinsic_resistant.html">here</a>.</p>
+<p>It was last updated on 11 December 2021 14:59:42 UTC. Find more info about the structure of this data set <a href="https://msberends.github.io/AMR/reference/intrinsic_resistant.html">here</a>.</p>
 <p><strong>Direct download links:</strong></p>
 <ul>
 <li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/intrinsic_resistant.rds" class="external-link">R file</a> (78 kB)<br>
@@ -1057,20 +1057,20 @@ If you are reading this page from within R, please <a href="https://msberends.gi
 </h2>
 <p>A data set with 22,000 rows and 10 columns, containing the following column names:<br><em>guideline</em>, <em>method</em>, <em>site</em>, <em>mo</em>, <em>ab</em>, <em>ref_tbl</em>, <em>disk_dose</em>, <em>breakpoint_S</em>, <em>breakpoint_R</em> and <em>uti</em>.</p>
 <p>This data set is in R available as <code>rsi_translation</code>, after you load the <code>AMR</code> package.</p>
-<p>It was last updated on 6 October 2021 14:38:29 UTC. Find more info about the structure of this data set <a href="https://msberends.github.io/AMR/reference/rsi_translation.html">here</a>.</p>
+<p>It was last updated on 12 December 2021 10:27:59 UTC. Find more info about the structure of this data set <a href="https://msberends.github.io/AMR/reference/rsi_translation.html">here</a>.</p>
 <p><strong>Direct download links:</strong></p>
 <ul>
-<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.rds" class="external-link">R file</a> (37 kB)<br>
+<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.rds" class="external-link">R file</a> (39 kB)<br>
 </li>
 <li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.xlsx" class="external-link">Excel file</a> (0.7 MB)<br>
 </li>
-<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.txt" class="external-link">plain text file</a> (1.8 MB)<br>
+<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.txt" class="external-link">plain text file</a> (1.9 MB)<br>
 </li>
-<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.sas" class="external-link">SAS file</a> (3.8 MB)<br>
+<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.sas" class="external-link">SAS file</a> (4 MB)<br>
 </li>
-<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.sav" class="external-link">SPSS file</a> (2.4 MB)<br>
+<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.sav" class="external-link">SPSS file</a> (2.6 MB)<br>
 </li>
-<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.dta" class="external-link">Stata file</a> (3.5 MB)</li>
+<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.dta" class="external-link">Stata file</a> (3.8 MB)</li>
 </ul>
 <div class="section level3">
 <h3 id="source-5">Source<a class="anchor" aria-label="anchor" href="#source-5"></a>

docs/articles/index.html

@@ -1,5 +1,5 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Articles • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="Articles"><meta property="og:image" content="https://msberends.github.io/AMR/logo.png"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Articles • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="Articles"><meta property="og:image" content="https://msberends.github.io/AMR/logo.svg"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
 <script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
 <script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
 <![endif]--></head><body data-spy="scroll" data-target="#toc">
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9064</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 

docs/articles/resistance_predict.html

@@ -20,7 +20,7 @@
 <script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet">
 <script src="../extra.js"></script><meta property="og:title" content="How to predict antimicrobial resistance">
 <meta property="og:description" content="AMR">
-<meta property="og:image" content="https://msberends.github.io/AMR/logo.png">
+<meta property="og:image" content="https://msberends.github.io/AMR/logo.svg">
 <meta name="twitter:card" content="summary_large_image">
 <meta name="twitter:creator" content="@msberends">
 <meta name="twitter:site" content="@univgroningen">
@@ -44,7 +44,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9062</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 

docs/articles/welcome_to_AMR.html

@@ -20,7 +20,7 @@
 <script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet">
 <script src="../extra.js"></script><meta property="og:title" content="Welcome to the `AMR` package">
 <meta property="og:description" content="AMR">
-<meta property="og:image" content="https://msberends.github.io/AMR/logo.png">
+<meta property="og:image" content="https://msberends.github.io/AMR/logo.svg">
 <meta name="twitter:card" content="summary_large_image">
 <meta name="twitter:creator" content="@msberends">
 <meta name="twitter:site" content="@univgroningen">
@@ -44,7 +44,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9064</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 
@@ -201,7 +201,8 @@
 <p>Note: to keep the package size as small as possible, we only included this vignette on CRAN. You can read more vignettes on our website about how to conduct AMR data analysis, determine MDRO’s, find explanation of EUCAST rules, and much more: <a href="https://msberends.github.io/AMR/articles/" class="uri">https://msberends.github.io/AMR/articles/</a>.</p>
 <hr>
 <p><code>AMR</code> is a free, open-source and independent R package (see <a href="https://msberends.github.io/AMR/#copyright">Copyright</a>) to simplify the analysis and prediction of Antimicrobial Resistance (AMR) and to work with microbial and antimicrobial data and properties, by using evidence-based methods. <strong>Our aim is to provide a standard</strong> for clean and reproducible antimicrobial resistance data analysis, that can therefore empower epidemiological analyses to continuously enable surveillance and treatment evaluation in any setting.</p>
-<p>After installing this package, R knows ~71,000 distinct microbial species and all ~560 antibiotic, antimycotic and antiviral drugs by name and code (including ATC, EARS-Net, PubChem, LOINC and SNOMED CT), and knows all about valid R/SI and MIC values. It supports any data format, including WHONET/EARS-Net data. Antimicrobial names and group names are available in Danish, Dutch, English, French, German, Italian, Portuguese and Spanish.</p>
+<p>After installing this package, R knows ~71,000 distinct microbial species and all ~560 antibiotic, antimycotic and antiviral drugs by name and code (including ATC, EARS-Net, PubChem, LOINC and SNOMED CT), and knows all about valid R/SI and MIC values. It supports any data format, including WHONET/EARS-Net data.</p>
+<p>The <code>AMR</code> package is available in Danish, Dutch, English, French, German, Italian, Portuguese, Russian, Spanish and Swedish. Antimicrobial drug (group) names and colloquial microorganism names are provided in these languages.</p>
 <p>This package is fully independent of any other R package and works on Windows, macOS and Linux with all versions of R since R-3.0 (April 2013). <strong>It was designed to work in any setting, including those with very limited resources</strong>. Since its first public release in early 2018, this package has been downloaded from more than 175 countries.</p>
 <p>This package can be used for:</p>
 <ul>

docs/authors.html

@@ -1,5 +1,5 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Authors and Citation • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="bootstrap-toc.css"><script src="bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="pkgdown.css" rel="stylesheet"><script src="pkgdown.js"></script><link href="extra.css" rel="stylesheet"><script src="extra.js"></script><meta property="og:title" content="Authors and Citation"><meta property="og:image" content="https://msberends.github.io/AMR/logo.png"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Authors and Citation • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="bootstrap-toc.css"><script src="bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="pkgdown.css" rel="stylesheet"><script src="pkgdown.js"></script><link href="extra.css" rel="stylesheet"><script src="extra.js"></script><meta property="og:title" content="Authors and Citation"><meta property="og:image" content="https://msberends.github.io/AMR/logo.svg"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
 <script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
 <script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
 <![endif]--></head><body data-spy="scroll" data-target="#toc">
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9064</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
       </span>
     </div>
 

docs/browserconfig.xml

@@ -0,0 +1,10 @@
+<?xml version="1.0" encoding="utf-8"?>
+<browserconfig>
+    <msapplication>
+        <tile>
+            <square150x150logo src="/mstile-150x150.png?v=2"/>
+            <square310x310logo src="/mstile-310x310.png?v=2"/>
+            <TileColor>#eeeeee</TileColor>
+        </tile>
+    </msapplication>
+</browserconfig>

docs/extra.css

@@ -268,6 +268,7 @@ table a:not(.btn):hover {
 /* AMR logo on index page */
 .template-home h1 img {
   height: 120px;
+  margin-right: 10px !important;
 }
 
 .btn.btn-info.btn-amr {

docs/extra.js

@@ -116,8 +116,8 @@ $(document).ready(function() {
   }
   $(".template-authors").html(doct_tit($(".template-authors").html()));
   $(".template-citation-authors").html(doct_tit($(".template-citation-authors").html()));
-  $('.template-citation-authors h1').eq(0).html("How to cite the <code>AMR</code> package");
-  $('.template-citation-authors h1').eq(1).html("All contributors of the <code>AMR</code> package");
+  $('.template-citation-authors h1').eq(0).html("All contributors of the <code>AMR</code> package");
+  $('.template-citation-authors h1').eq(1).html("How to cite the <code>AMR</code> package");
   $(".developers").html(doct_tit($(".developers").html()));
   $(".developers a[href='authors.html']").text("All contributors...");
 });

docs/index.html

@@ -23,7 +23,7 @@
     data analysis and to work with microbial and antimicrobial properties by
     using evidence-based methods and reliable reference data such as LPSN
     <doi:10.1099/ijsem.0.004332>.">
-<meta property="og:image" content="https://msberends.github.io/AMR/logo.png">
+<meta property="og:image" content="https://msberends.github.io/AMR/logo.svg">
 <meta name="twitter:card" content="summary_large_image">
 <meta name="twitter:creator" content="@msberends">
 <meta name="twitter:site" content="@univgroningen">
@@ -47,7 +47,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9064</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
       </span>
     </div>
 
@@ -192,16 +192,18 @@
   <div class="contents col-md-9">
 <div class="section level1">
 <div class="page-header"><h1 id="amr-for-r-">
-<code>AMR</code> (for R) <img src="./logo.png" align="right" height="120px"><a class="anchor" aria-label="anchor" href="#amr-for-r-"></a>
+<code>AMR</code> (for R) <img src="./logo.svg" align="right"><a class="anchor" aria-label="anchor" href="#amr-for-r-"></a>
 </h1></div>
 <blockquote>
-<p>Update: The latest <a href="https://www.eucast.org/expert_rules_and_intrinsic_resistance/" class="external-link">EUCAST guideline for intrinsic resistance</a> (v3.3, October 2021) is now supported, and our taxonomy tables have been updated as well (LPSN, 5 October 2021). <strong>A new version will be released after the <a href="https://www.eucast.org/clinical_breakpoints/" class="external-link">EUCAST guideline for clinical breakpoints</a> (v12.0, likely January 2022) are implemented, to be expected shortly after the official guideline release.</strong></p>
+<p>Update: The latest <a href="https://www.eucast.org/expert_rules_and_intrinsic_resistance/" class="external-link">EUCAST guideline for intrinsic resistance</a> (v3.3, October 2021) is now supported, the CLSI 2021 interpretation guideline is now supported, and our taxonomy tables have been updated as well (LPSN, 5 October 2021).</p>
+<p><strong>A new version will be released after the <a href="https://www.eucast.org/clinical_breakpoints/" class="external-link">EUCAST guideline for clinical breakpoints</a> (v12.0, likely January 2022) are implemented as well, to be expected shortly after the official guideline release.</strong></p>
 </blockquote>
 <div class="section level3">
 <h3 id="what-is-amr-for-r">What is <code>AMR</code> (for R)?<a class="anchor" aria-label="anchor" href="#what-is-amr-for-r"></a>
 </h3>
 <p><code>AMR</code> is a free, open-source and independent <a href="https://www.r-project.org" class="external-link">R package</a> (see <a href="#copyright">Copyright</a>) to simplify the analysis and prediction of Antimicrobial Resistance (AMR) and to work with microbial and antimicrobial data and properties, by using evidence-based methods. <strong>Our aim is to provide a standard</strong> for clean and reproducible AMR data analysis, that can therefore empower epidemiological analyses to continuously enable surveillance and treatment evaluation in any setting.</p>
-<p>After installing this package, R knows <a href="./reference/microorganisms.html"><strong>~71,000 distinct microbial species</strong></a> and all <a href="./reference/antibiotics.html"><strong>~560 antibiotic, antimycotic and antiviral drugs</strong></a> by name and code (including ATC, EARS-Net, PubChem, LOINC and SNOMED CT), and knows all about valid R/SI and MIC values. It supports any data format, including WHONET/EARS-Net data. Antimicrobial names and group names are available in Danish, Dutch, English, French, German, Italian, Portuguese and Spanish.</p>
+<p>After installing this package, R knows <a href="./reference/microorganisms.html"><strong>~71,000 distinct microbial species</strong></a> and all <a href="./reference/antibiotics.html"><strong>~560 antibiotic, antimycotic and antiviral drugs</strong></a> by name and code (including ATC, EARS-Net, PubChem, LOINC and SNOMED CT), and knows all about valid R/SI and MIC values. It supports any data format, including WHONET/EARS-Net data.</p>
+<p>The <code>AMR</code> package is available in <img src="lang_da.svg" style="height: 11px !important; vertical-align: initial !important;"> Danish, <img src="lang_nl.svg" style="height: 11px !important; vertical-align: initial !important;"> Dutch, <img src="lang_en.svg" style="height: 11px !important; vertical-align: initial !important;"> English, <img src="lang_fr.svg" style="height: 11px !important; vertical-align: initial !important;"> French, <img src="lang_de.svg" style="height: 11px !important; vertical-align: initial !important;"> German, <img src="lang_it.svg" style="height: 11px !important; vertical-align: initial !important;"> Italian, <img src="lang_pt.svg" style="height: 11px !important; vertical-align: initial !important;"> Portuguese, <img src="lang_ru.svg" style="height: 11px !important; vertical-align: initial !important;"> Russian, <img src="lang_es.svg" style="height: 11px !important; vertical-align: initial !important;"> Spanish and <img src="lang_sv.svg" style="height: 11px !important; vertical-align: initial !important;"> Swedish. Antimicrobial drug (group) names and colloquial microorganism names are provided in these languages.</p>
 <p>This package is <a href="https://en.wikipedia.org/wiki/Dependency_hell" class="external-link">fully independent of any other R package</a> and works on Windows, macOS and Linux with all versions of R since R-3.0 (April 2013). <strong>It was designed to work in any setting, including those with very limited resources</strong>. It was created for both routine data analysis and academic research at the Faculty of Medical Sciences of the <a href="https://www.rug.nl" class="external-link">University of Groningen</a>, in collaboration with non-profit organisations <a href="https://www.certe.nl" class="external-link">Certe Medical Diagnostics and Advice Foundation</a> and <a href="https://www.umcg.nl" class="external-link">University Medical Center Groningen</a>. This R package formed the basis of two PhD theses (<a href="https://doi.org/10.33612/diss.177417131" class="external-link">DOI 10.33612/diss.177417131</a> and <a href="https://doi.org/10.33612/diss.192486375" class="external-link">DOI 10.33612/diss.192486375</a>) but is <a href="./news">actively and durably maintained</a> by two public healthcare organisations in the Netherlands.</p>
 <div class="main-content" style="display: inline-block;">
 <p>

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-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Changelog • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="Changelog"><meta property="og:image" content="https://msberends.github.io/AMR/logo.png"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Changelog • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="Changelog"><meta property="og:image" content="https://msberends.github.io/AMR/logo.svg"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
 <script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
 <script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
 <![endif]--></head><body data-spy="scroll" data-target="#toc">
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9066</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
       </span>
     </div>
 
@@ -157,21 +157,24 @@
     </div>
 
     <div class="section level2">
-<h2 class="page-header" data-toc-text="1.7.1.9066" id="amr-1719066">
-<code>AMR</code> 1.7.1.9066<a class="anchor" aria-label="anchor" href="#amr-1719066"></a></h2>
+<h2 class="page-header" data-toc-text="1.7.1.9069" id="amr-1719069">
+<code>AMR</code> 1.7.1.9069<a class="anchor" aria-label="anchor" href="#amr-1719069"></a></h2>
 <div class="section level3">
-<h3 id="last-updated-december-1-7-1-9066"><small>Last updated: 11 December 2021</small><a class="anchor" aria-label="anchor" href="#last-updated-december-1-7-1-9066"></a></h3>
+<h3 id="last-updated-december-1-7-1-9069"><small>Last updated: 12 December 2021</small><a class="anchor" aria-label="anchor" href="#last-updated-december-1-7-1-9069"></a></h3>
+<p>All functions in this package are now all considered to be stable. Updates to the AMR interpretation rules (such as by EUCAST and CLSI), the microbial taxonomy, and the antibiotic dosages will all be updated every 6 to 12 months from now on.</p>
 <div class="section level4">
-<h4 id="breaking-changes-1-7-1-9066">Breaking changes<a class="anchor" aria-label="anchor" href="#breaking-changes-1-7-1-9066"></a></h4>
+<h4 id="breaking-changes-1-7-1-9069">Breaking changes<a class="anchor" aria-label="anchor" href="#breaking-changes-1-7-1-9069"></a></h4>
 <ul><li>Removed <code>p_symbol()</code> and all <code>filter_*()</code> functions (except for <code><a href="../reference/first_isolate.html">filter_first_isolate()</a></code>), which were all deprecated in a previous package version</li>
 <li>Removed the <code>key_antibiotics()</code> and <code>key_antibiotics_equal()</code> functions, which were deprecated and superseded by <code><a href="../reference/key_antimicrobials.html">key_antimicrobials()</a></code> and <code><a href="../reference/key_antimicrobials.html">antimicrobials_equal()</a></code>
 </li>
 <li>Removed all previously implemented <code><a href="https://ggplot2.tidyverse.org/reference/ggplot.html" class="external-link">ggplot2::ggplot()</a></code> generics for classes <code>&lt;mic&gt;</code>, <code>&lt;disk&gt;</code>, <code>&lt;rsi&gt;</code> and <code>&lt;resistance_predict&gt;</code> as they did not follow the <code>ggplot2</code> logic. They were replaced with <code><a href="https://ggplot2.tidyverse.org/reference/autoplot.html" class="external-link">ggplot2::autoplot()</a></code> generics.</li>
+<li>Renamed function <code>get_locale()</code> to <code><a href="../reference/translate.html">get_AMR_locale()</a></code> to prevent conflicts with other packages</li>
 </ul></div>
 <div class="section level4">
-<h4 id="new-1-7-1-9066">New<a class="anchor" aria-label="anchor" href="#new-1-7-1-9066"></a></h4>
-<ul><li><p>Support for EUCAST Intrinsic Resistance and Unusual Phenotypes v3.3 (October 2021). This is now the default EUCAST guideline in the package (all older guidelines are still available) for <code><a href="../reference/eucast_rules.html">eucast_rules()</a></code>, <code>mo_intrinsic_resistant()</code> and <code><a href="../reference/mdro.html">mdro()</a></code>. The <code>intrinsic_resistant</code> data set was also updated accordingly.</p></li>
-<li><p>Support for Danish, and also added missing translations of all antimicrobial drugs in Italian, French and Portuguese</p></li>
+<h4 id="new-1-7-1-9069">New<a class="anchor" aria-label="anchor" href="#new-1-7-1-9069"></a></h4>
+<ul><li><p>Support for the CLSI 2021 guideline for interpreting MIC/disk diffusion values, which are incorporated in the <code>rsi_translation</code> data set</p></li>
+<li><p>Support for EUCAST Intrinsic Resistance and Unusual Phenotypes v3.3 (October 2021). This is now the default EUCAST guideline in the package (all older guidelines are still available) for <code><a href="../reference/eucast_rules.html">eucast_rules()</a></code>, <code>mo_intrinsic_resistant()</code> and <code><a href="../reference/mdro.html">mdro()</a></code>. The <code>intrinsic_resistant</code> data set was also updated accordingly.</p></li>
+<li><p>Support for all antimicrobial drug (group) names and colloquial microorganism names in Danish, Dutch, English, French, German, Italian, Portuguese, Russian, Spanish and Swedish</p></li>
 <li>
 <p>Function <code><a href="../reference/ab_property.html">set_ab_names()</a></code> to rename data set columns that resemble antimicrobial drugs. This allows for quickly renaming columns to official names, ATC codes, etc. Its second argument can be a tidyverse way of selecting:</p>
 <div class="sourceCode" id="cb1"><pre class="downlit sourceCode r">
@@ -183,7 +186,7 @@
 <li><p>Function <code><a href="../reference/ab_property.html">ab_ddd_units()</a></code> to get units of DDDs (daily defined doses), deprecating the use of <code>ab_ddd(..., units = TRUE)</code> to be more consistent in data types of function output</p></li>
 </ul></div>
 <div class="section level4">
-<h4 id="changed-1-7-1-9066">Changed<a class="anchor" aria-label="anchor" href="#changed-1-7-1-9066"></a></h4>
+<h4 id="changed-1-7-1-9069">Changed<a class="anchor" aria-label="anchor" href="#changed-1-7-1-9069"></a></h4>
 <ul><li>Updated the bacterial taxonomy to 5 October 2021 (according to <a href="https://lpsn.dsmz.de" class="external-link">LPSN</a>), including all 11 new staphylococcal species named since 1 January last year</li>
 <li>The <code>antibiotics</code> data set now contains <strong>all ATC codes</strong> that are available through the <a href="https://www.whocc.no" class="external-link">WHOCC website</a>, regardless of drugs being present in more than one ATC group. This means that:
 <ul><li>Some drugs now contain multiple ATC codes (e.g., metronidazole contains 5)</li>
@@ -229,7 +232,7 @@
 </li>
 <li>The right input types for <code><a href="../reference/random.html">random_mic()</a></code>, <code><a href="../reference/random.html">random_disk()</a></code> and <code><a href="../reference/random.html">random_rsi()</a></code> are now enforced</li>
 <li>
-<code><a href="../reference/as.rsi.html">as.rsi()</a></code> has an improved algorithm and can now also correct for textual input (such as “Susceptible”, “Resistant”) in Danish, Dutch, English, French, German, Italian, Portuguese and Spanish</li>
+<code><a href="../reference/as.rsi.html">as.rsi()</a></code> has an improved algorithm and can now also correct for textual input (such as “Susceptible”, “Resistant”) in all supported languages</li>
 <li>
 <code><a href="../reference/as.mic.html">as.mic()</a></code> has an improved algorithm</li>
 <li>When warnings are thrown because of too few isolates in any <code>count_*()</code>, <code>proportion_*()</code> function (or <code>resistant()</code> or <code>susceptible()</code>), the <code>dplyr</code> group will be shown, if available</li>
@@ -252,8 +255,8 @@
 <code><a href="../reference/get_episode.html">get_episode()</a></code> and <code><a href="../reference/get_episode.html">is_new_episode()</a></code> can now cope with <code>NA</code>s</li>
 </ul></div>
 <div class="section level4">
-<h4 id="other-1-7-1-9066">Other<a class="anchor" aria-label="anchor" href="#other-1-7-1-9066"></a></h4>
-<ul><li>This package is now being maintained by two epidemiologists and a data scientist from two different non-profit healthcare organisations. All functions in this package are now all considered to be stable. Updates to the AMR interpretation rules (such as by EUCAST and CLSI), the microbial taxonomy, and the antibiotic dosages will all be updated every 6 to 12 months from now on.</li>
+<h4 id="other-1-7-1-9069">Other<a class="anchor" aria-label="anchor" href="#other-1-7-1-9069"></a></h4>
+<ul><li>This package is now being maintained by two epidemiologists and a data scientist from two different non-profit healthcare organisations.</li>
 </ul></div>
 </div>
 </div>
@@ -623,7 +626,7 @@
 <li>Big speed improvement for already valid microorganism ID. This also means an significant speed improvement for using <code>mo_*</code> functions like <code><a href="../reference/mo_property.html">mo_name()</a></code> on microoganism IDs.</li>
 <li>Added argument <code>ignore_pattern</code> to <code><a href="../reference/as.mo.html">as.mo()</a></code> which can also be given to <code>mo_*</code> functions like <code><a href="../reference/mo_property.html">mo_name()</a></code>, to exclude known non-relevant input from analysing. This can also be set with the option <code>AMR_ignore_pattern</code>.</li>
 </ul></li>
-<li><p><code><a href="../reference/translate.html">get_locale()</a></code> now uses at default <code>Sys.getenv("LANG")</code> or, if <code>LANG</code> is not set, <code><a href="https://rdrr.io/r/base/locales.html" class="external-link">Sys.getlocale()</a></code>. This can be overwritten by setting the option <code>AMR_locale</code>.</p></li>
+<li><p><code>get_locale()</code> now uses at default <code>Sys.getenv("LANG")</code> or, if <code>LANG</code> is not set, <code><a href="https://rdrr.io/r/base/locales.html" class="external-link">Sys.getlocale()</a></code>. This can be overwritten by setting the option <code>AMR_locale</code>.</p></li>
 <li><p>Big speed improvement for <code><a href="../reference/eucast_rules.html">eucast_rules()</a></code></p></li>
 <li><p>Overall speed improvement by tweaking joining functions</p></li>
 <li><p>Function <code><a href="../reference/mo_property.html">mo_shortname()</a></code> now returns the genus for input where the species is unknown</p></li>

docs/pkgdown.yml

@@ -12,7 +12,7 @@ articles:
   datasets: datasets.html
   resistance_predict: resistance_predict.html
   welcome_to_AMR: welcome_to_AMR.html
-last_built: 2021-12-06T10:09Z
+last_built: 2021-12-12T10:02Z
 urls:
   reference: https://msberends.github.io/AMR/reference
   article: https://msberends.github.io/AMR/articles

docs/reference/AMR-deprecated.html

@@ -1,5 +1,5 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Deprecated Functions — AMR-deprecated • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="Deprecated Functions — AMR-deprecated"><meta property="og:description" content="These functions are so-called 'Deprecated'. They will be removed in a future release. Using the functions will give a warning with the name of the function it has been replaced by (if there is one)."><meta property="og:image" content="https://msberends.github.io/AMR/logo.png"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Deprecated Functions — AMR-deprecated • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="Deprecated Functions — AMR-deprecated"><meta property="og:description" content="These functions are so-called 'Deprecated'. They will be removed in a future release. Using the functions will give a warning with the name of the function it has been replaced by (if there is one)."><meta property="og:image" content="https://msberends.github.io/AMR/logo.svg"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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 <script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
 <![endif]--></head><body data-spy="scroll" data-target="#toc">
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9062</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 

docs/reference/AMR.html

@@ -1,5 +1,5 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>The AMR Package — AMR • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="The AMR Package — AMR"><meta property="og:description" content="Welcome to the AMR package."><meta property="og:image" content="https://msberends.github.io/AMR/logo.png"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>The AMR Package — AMR • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="The AMR Package — AMR"><meta property="og:description" content="Welcome to the AMR package."><meta property="og:image" content="https://msberends.github.io/AMR/logo.svg"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9062</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 

docs/reference/WHOCC.html

@@ -1,5 +1,5 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>WHOCC: WHO Collaborating Centre for Drug Statistics Methodology — WHOCC • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="WHOCC: WHO Collaborating Centre for Drug Statistics Methodology — WHOCC"><meta property="og:description" content="All antimicrobial drugs and their official names, ATC codes, ATC groups and defined daily dose (DDD) are included in this package, using the WHO Collaborating Centre for Drug Statistics Methodology."><meta property="og:image" content="https://msberends.github.io/AMR/logo.png"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>WHOCC: WHO Collaborating Centre for Drug Statistics Methodology — WHOCC • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="WHOCC: WHO Collaborating Centre for Drug Statistics Methodology — WHOCC"><meta property="og:description" content="All antimicrobial drugs and their official names, ATC codes, ATC groups and defined daily dose (DDD) are included in this package, using the WHO Collaborating Centre for Drug Statistics Methodology."><meta property="og:image" content="https://msberends.github.io/AMR/logo.svg"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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 <![endif]--></head><body data-spy="scroll" data-target="#toc">
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9062</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 

docs/reference/WHONET.html

@@ -1,5 +1,5 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Data Set with 500 Isolates - WHONET Example — WHONET • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="Data Set with 500 Isolates - WHONET Example — WHONET"><meta property="og:description" content="This example data set has the exact same structure as an export file from WHONET. Such files can be used with this package, as this example data set shows. The antibiotic results are from our example_isolates data set. All patient names are created using online surname generators and are only in place for practice purposes."><meta property="og:image" content="https://msberends.github.io/AMR/logo.png"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Data Set with 500 Isolates - WHONET Example — WHONET • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="Data Set with 500 Isolates - WHONET Example — WHONET"><meta property="og:description" content="This example data set has the exact same structure as an export file from WHONET. Such files can be used with this package, as this example data set shows. The antibiotic results are from our example_isolates data set. All patient names are created using online surname generators and are only in place for practice purposes."><meta property="og:image" content="https://msberends.github.io/AMR/logo.svg"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
 <script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
 <script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
 <![endif]--></head><body data-spy="scroll" data-target="#toc">
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9062</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 

docs/reference/ab_from_text.html

@@ -1,5 +1,5 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Retrieve Antimicrobial Drug Names and Doses from Clinical Text — ab_from_text • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="Retrieve Antimicrobial Drug Names and Doses from Clinical Text — ab_from_text"><meta property="og:description" content="Use this function on e.g. clinical texts from health care records. It returns a list with all antimicrobial drugs, doses and forms of administration found in the texts."><meta property="og:image" content="https://msberends.github.io/AMR/logo.png"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Retrieve Antimicrobial Drug Names and Doses from Clinical Text — ab_from_text • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="Retrieve Antimicrobial Drug Names and Doses from Clinical Text — ab_from_text"><meta property="og:description" content="Use this function on e.g. clinical texts from health care records. It returns a list with all antimicrobial drugs, doses and forms of administration found in the texts."><meta property="og:image" content="https://msberends.github.io/AMR/logo.svg"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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 <script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
 <![endif]--></head><body data-spy="scroll" data-target="#toc">
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9062</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 

docs/reference/ab_property.html

@@ -1,5 +1,5 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Get Properties of an Antibiotic — ab_property • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="Get Properties of an Antibiotic — ab_property"><meta property="og:description" content="Use these functions to return a specific property of an antibiotic from the antibiotics data set. All input values will be evaluated internally with as.ab()."><meta property="og:image" content="https://msberends.github.io/AMR/logo.png"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Get Properties of an Antibiotic — ab_property • AMR (for R)</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link href="https://cdnjs.cloudflare.com/ajax/libs/bootswatch/3.4.0/flatly/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><link href="../extra.css" rel="stylesheet"><script src="../extra.js"></script><meta property="og:title" content="Get Properties of an Antibiotic — ab_property"><meta property="og:description" content="Use these functions to return a specific property of an antibiotic from the antibiotics data set. All input values will be evaluated internally with as.ab()."><meta property="og:image" content="https://msberends.github.io/AMR/logo.svg"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@msberends"><meta name="twitter:site" content="@univgroningen"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
 <script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
 <script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
 <![endif]--></head><body data-spy="scroll" data-target="#toc">
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9064</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
       </span>
     </div>
 
@@ -161,7 +161,7 @@
     <p>Use these functions to return a specific property of an antibiotic from the <a href="antibiotics.html">antibiotics</a> data set. All input values will be evaluated internally with <code><a href="as.ab.html">as.ab()</a></code>.</p>
     </div>
 
-    <div id="ref-usage">Usage,<div class="sourceCode"><pre class="sourceCode r"><code><span class="fu">ab_name</span><span class="op">(</span><span class="va">x</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_locale</a></span><span class="op">(</span><span class="op">)</span>, tolower <span class="op">=</span> <span class="cn">FALSE</span>, <span class="va">...</span><span class="op">)</span>
+    <div id="ref-usage">Usage,<div class="sourceCode"><pre class="sourceCode r"><code><span class="fu">ab_name</span><span class="op">(</span><span class="va">x</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_AMR_locale</a></span><span class="op">(</span><span class="op">)</span>, tolower <span class="op">=</span> <span class="cn">FALSE</span>, <span class="va">...</span><span class="op">)</span>
 
 <span class="fu">ab_cid</span><span class="op">(</span><span class="va">x</span>, <span class="va">...</span><span class="op">)</span>
 
@@ -169,13 +169,13 @@
 
 <span class="fu">ab_tradenames</span><span class="op">(</span><span class="va">x</span>, <span class="va">...</span><span class="op">)</span>
 
-<span class="fu">ab_group</span><span class="op">(</span><span class="va">x</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_locale</a></span><span class="op">(</span><span class="op">)</span>, <span class="va">...</span><span class="op">)</span>
+<span class="fu">ab_group</span><span class="op">(</span><span class="va">x</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_AMR_locale</a></span><span class="op">(</span><span class="op">)</span>, <span class="va">...</span><span class="op">)</span>
 
 <span class="fu">ab_atc</span><span class="op">(</span><span class="va">x</span>, only_first <span class="op">=</span> <span class="cn">FALSE</span>, <span class="va">...</span><span class="op">)</span>
 
-<span class="fu">ab_atc_group1</span><span class="op">(</span><span class="va">x</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_locale</a></span><span class="op">(</span><span class="op">)</span>, <span class="va">...</span><span class="op">)</span>
+<span class="fu">ab_atc_group1</span><span class="op">(</span><span class="va">x</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_AMR_locale</a></span><span class="op">(</span><span class="op">)</span>, <span class="va">...</span><span class="op">)</span>
 
-<span class="fu">ab_atc_group2</span><span class="op">(</span><span class="va">x</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_locale</a></span><span class="op">(</span><span class="op">)</span>, <span class="va">...</span><span class="op">)</span>
+<span class="fu">ab_atc_group2</span><span class="op">(</span><span class="va">x</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_AMR_locale</a></span><span class="op">(</span><span class="op">)</span>, <span class="va">...</span><span class="op">)</span>
 
 <span class="fu">ab_loinc</span><span class="op">(</span><span class="va">x</span>, <span class="va">...</span><span class="op">)</span>
 
@@ -183,17 +183,17 @@
 
 <span class="fu">ab_ddd_units</span><span class="op">(</span><span class="va">x</span>, administration <span class="op">=</span> <span class="st">"oral"</span>, <span class="va">...</span><span class="op">)</span>
 
-<span class="fu">ab_info</span><span class="op">(</span><span class="va">x</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_locale</a></span><span class="op">(</span><span class="op">)</span>, <span class="va">...</span><span class="op">)</span>
+<span class="fu">ab_info</span><span class="op">(</span><span class="va">x</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_AMR_locale</a></span><span class="op">(</span><span class="op">)</span>, <span class="va">...</span><span class="op">)</span>
 
 <span class="fu">ab_url</span><span class="op">(</span><span class="va">x</span>, open <span class="op">=</span> <span class="cn">FALSE</span>, <span class="va">...</span><span class="op">)</span>
 
-<span class="fu">ab_property</span><span class="op">(</span><span class="va">x</span>, property <span class="op">=</span> <span class="st">"name"</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_locale</a></span><span class="op">(</span><span class="op">)</span>, <span class="va">...</span><span class="op">)</span>
+<span class="fu">ab_property</span><span class="op">(</span><span class="va">x</span>, property <span class="op">=</span> <span class="st">"name"</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_AMR_locale</a></span><span class="op">(</span><span class="op">)</span>, <span class="va">...</span><span class="op">)</span>
 
 <span class="fu">set_ab_names</span><span class="op">(</span>
   <span class="va">data</span>,
   <span class="va">...</span>,
   property <span class="op">=</span> <span class="st">"name"</span>,
-  language <span class="op">=</span> <span class="fu"><a href="translate.html">get_locale</a></span><span class="op">(</span><span class="op">)</span>,
+  language <span class="op">=</span> <span class="fu"><a href="translate.html">get_AMR_locale</a></span><span class="op">(</span><span class="op">)</span>,
   snake_case <span class="op">=</span> <span class="cn">NULL</span>
 <span class="op">)</span></code></pre></div></div>
 
@@ -202,7 +202,7 @@
     <dl><dt>x</dt>
 <dd><p>any (vector of) text that can be coerced to a valid antibiotic code with <code><a href="as.ab.html">as.ab()</a></code></p></dd>
 <dt>language</dt>
-<dd><p>language of the returned text, defaults to system language (see <code><a href="translate.html">get_locale()</a></code>) and can also be set with <code>getOption("AMR_locale")</code>. Use <code>language = NULL</code> or <code>language = ""</code> to prevent translation.</p></dd>
+<dd><p>language of the returned text, defaults to system language (see <code><a href="translate.html">get_AMR_locale()</a></code>) and can also be set with <code>getOption("AMR_locale")</code>. Use <code>language = NULL</code> or <code>language = ""</code> to prevent translation.</p></dd>
 <dt>tolower</dt>
 <dd><p>a <a href="https://rdrr.io/r/base/logical.html" class="external-link">logical</a> to indicate whether the first <a href="https://rdrr.io/r/base/character.html" class="external-link">character</a> of every output should be transformed to a lower case <a href="https://rdrr.io/r/base/character.html" class="external-link">character</a>. This will lead to e.g. "polymyxin B" and not "polymyxin b".</p></dd>
 <dt>...</dt>