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(v1.7.1.9040) Support for Danish

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dr. M.S. (Matthijs) Berends 2021-09-29 12:12:35 +02:00
parent 5f433d6e5c
commit 93a4734b44
62 changed files with 911 additions and 823 deletions
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6
DESCRIPTION
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@ -1,6 +1,6 @@
Package: AMR Package: AMR
Version: 1.7.1.9039 Version: 1.7.1.9040
Date: 2021-09-03 Date: 2021-09-29
Title: Antimicrobial Resistance Data Analysis Title: Antimicrobial Resistance Data Analysis
Description: Functions to simplify and standardise antimicrobial resistance (AMR) Description: Functions to simplify and standardise antimicrobial resistance (AMR)
data analysis and to work with microbial and antimicrobial properties by data analysis and to work with microbial and antimicrobial properties by
@ -88,5 +88,5 @@ BugReports: https://github.com/msberends/AMR/issues
License: GPL-2 | file LICENSE License: GPL-2 | file LICENSE
Encoding: UTF-8 Encoding: UTF-8
LazyData: true LazyData: true
RoxygenNote: 7.1.1 RoxygenNote: 7.1.2
Roxygen: list(markdown = TRUE) Roxygen: list(markdown = TRUE)

5
NEWS.md
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@ -1,5 +1,5 @@
# `AMR` 1.7.1.9039 # `AMR` 1.7.1.9040
## <small>Last updated: 3 September 2021</small> ## <small>Last updated: 29 September 2021</small>
### Breaking changes ### Breaking changes
* Removed `p_symbol()` and all `filter_*()` functions (except for `filter_first_isolate()`), which were all deprecated in a previous package version * Removed `p_symbol()` and all `filter_*()` functions (except for `filter_first_isolate()`), which were all deprecated in a previous package version
@ -8,6 +8,7 @@
### New ### New
* 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. * 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.
* Support for Danish, and also added missing translations of all antimicrobial drugs in Italian, French and Portuguese
### Changed ### Changed
* The `antibiotics` data set now contains **all ATC codes** that are available through the [WHOCC website](https://www.whocc.no), regardless of drugs being present in more than one ATC group. This means that: * The `antibiotics` data set now contains **all ATC codes** that are available through the [WHOCC website](https://www.whocc.no), regardless of drugs being present in more than one ATC group. This means that:

4
R/ab.R
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@ -118,7 +118,7 @@ as.ab <- function(x, flag_multiple_results = TRUE, info = interactive(), ...) {
# remove diacritics # remove diacritics
x <- iconv(x, from = "UTF-8", to = "ASCII//TRANSLIT") x <- iconv(x, from = "UTF-8", to = "ASCII//TRANSLIT")
x <- gsub('"', "", x, fixed = TRUE) x <- gsub('"', "", x, fixed = TRUE)
x <- gsub("(specimen|specimen date|specimen_date|spec_date|^dates?$)", "", x, ignore.case = TRUE, perl = TRUE) x <- gsub("(specimen|specimen date|specimen_date|spec_date|gender|^dates?$)", "", x, ignore.case = TRUE, perl = TRUE)
x_bak_clean <- x x_bak_clean <- x
if (already_regex == FALSE) { if (already_regex == FALSE) {
x_bak_clean <- generalise_antibiotic_name(x_bak_clean) x_bak_clean <- generalise_antibiotic_name(x_bak_clean)
@ -443,7 +443,7 @@ as.ab <- function(x, flag_multiple_results = TRUE, info = interactive(), ...) {
# take failed ATC codes apart from rest # take failed ATC codes apart from rest
x_unknown_ATCs <- x_unknown[x_unknown %like% "[A-Z][0-9][0-9][A-Z][A-Z][0-9][0-9]"] x_unknown_ATCs <- x_unknown[x_unknown %like% "[A-Z][0-9][0-9][A-Z][A-Z][0-9][0-9]"]
x_unknown <- x_unknown[!x_unknown %in% x_unknown_ATCs] x_unknown <- x_unknown[!x_unknown %in% x_unknown_ATCs]
if (length(x_unknown_ATCs) > 0) { if (length(x_unknown_ATCs) > 0 & fast_mode == FALSE) {
warning_("These ATC codes are not (yet) in the antibiotics data set: ", warning_("These ATC codes are not (yet) in the antibiotics data set: ",
vector_and(x_unknown_ATCs), ".", vector_and(x_unknown_ATCs), ".",
call = FALSE) call = FALSE)

146
R/ab_property.R
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@ -34,7 +34,7 @@
#' @param administration way of administration, either `"oral"` or `"iv"` #' @param administration way of administration, either `"oral"` or `"iv"`
#' @param open browse the URL using [utils::browseURL()] #' @param open browse the URL using [utils::browseURL()]
#' @param ... other arguments passed on to [as.ab()] #' @param ... other arguments passed on to [as.ab()]
#' @param data a [data.frame] of which the columns need to be renamed #' @param data a [data.frame] of which the columns need to be renamed, or a [character] vector of column names
#' @param snake_case a [logical] to indicate whether the names should be in so-called [snake case](https://en.wikipedia.org/wiki/Snake_case): in lower case and all spaces/slashes replaced with an underscore (`_`) #' @param snake_case a [logical] to indicate whether the names should be in so-called [snake case](https://en.wikipedia.org/wiki/Snake_case): in lower case and all spaces/slashes replaced with an underscore (`_`)
#' @param only_first a [logical] to indicate whether only the first ATC code must be returned, with giving preference to J0-codes (i.e., the antimicrobial drug group) #' @param only_first a [logical] to indicate whether only the first ATC code must be returned, with giving preference to J0-codes (i.e., the antimicrobial drug group)
#' @details All output [will be translated][translate] where possible. #' @details All output [will be translated][translate] where possible.
@ -101,6 +101,11 @@
#' if (require("dplyr")) { #' if (require("dplyr")) {
#' example_isolates %>% #' example_isolates %>%
#' set_ab_names() #' set_ab_names()
#'
#' # this does the same:
#' example_isolates %>%
#' rename_with(set_ab_names)
#'
#' # set_ab_names() works with any AB property: #' # set_ab_names() works with any AB property:
#' example_isolates %>% #' example_isolates %>%
#' set_ab_names("atc") #' set_ab_names("atc")
@ -120,68 +125,6 @@ ab_name <- function(x, language = get_locale(), tolower = FALSE, ...) {
x x
} }
#' @rdname ab_property
#' @aliases ATC
#' @export
set_ab_names <- function(data, property = "name", language = get_locale(), snake_case = property == "name") {
meet_criteria(data, allow_class = "data.frame")
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)
meet_criteria(snake_case, allow_class = "logical", has_length = 1)
x_deparsed <- deparse(substitute(data))
if (length(x_deparsed) > 1 || any(x_deparsed %unlike% "[a-z]+")) {
x_deparsed <- "your_data"
}
property <- tolower(property)
columns <- get_column_abx(data, info = FALSE, only_rsi_columns = FALSE, sort = FALSE)
if (length(columns) == 0) {
message_("No columns with antibiotic results found for `set_ab_names()`, leaving names unchanged.")
return(data)
}
x <- vapply(FUN.VALUE = character(1),
ab_property(columns, property = property, language = language),
function(x) {
if (property == "atc") {
# try to get the J-group
if (any(x %like% "^J")) {
x[x %like% "^J"][1L]
} else {
as.character(x[1L])
}
} else {
as.character(x[1L])
}
})
if (any(x %in% c("", NA))) {
warning_("No ", property, " found for column(s): ", vector_and(columns[x %in% c("", NA)], sort = FALSE), call = FALSE)
x[x %in% c("", NA)] <- columns[x %in% c("", NA)]
}
if (snake_case == TRUE) {
x <- tolower(gsub("[^a-zA-Z0-9]+", "_", x))
}
if (any(duplicated(x))) {
# very hacky way of adding the index to each duplicate
# so "Amoxicillin", "Amoxicillin", "Amoxicillin"
# will be "Amoxicillin", "Amoxicillin_2", "Amoxicillin_3"
invisible(lapply(unique(x),
function(u) {
dups <- which(x == u)
if (length(dups) > 1) {
# there are duplicates
dup_add_int <- dups[2:length(dups)]
x[dup_add_int] <<- paste0(x[dup_add_int], "_", c(2:length(dups)))
}
}))
}
colnames(data)[colnames(data) %in% columns] <- x
data
}
#' @rdname ab_property #' @rdname ab_property
#' @export #' @export
ab_cid <- function(x, ...) { ab_cid <- function(x, ...) {
@ -382,6 +325,83 @@ ab_property <- function(x, property = "name", language = get_locale(), ...) {
translate_AMR(ab_validate(x = x, property = property, ...), language = language) translate_AMR(ab_validate(x = x, property = property, ...), language = language)
} }
#' @rdname ab_property
#' @aliases ATC
#' @export
set_ab_names <- function(data, property = "name", language = get_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)
meet_criteria(snake_case, allow_class = "logical", has_length = 1, allow_NULL = TRUE)
x_deparsed <- deparse(substitute(data))
if (length(x_deparsed) > 1 || any(x_deparsed %unlike% "[a-z]+")) {
x_deparsed <- "your_data"
}
property <- tolower(property)
if (is.null(snake_case)) {
snake_case <- property == "name"
}
if (is.data.frame(data)) {
vars <- get_column_abx(data, info = FALSE, only_rsi_columns = FALSE, sort = FALSE)
if (length(vars) == 0) {
message_("No columns with antibiotic results found for `set_ab_names()`, leaving names unchanged.")
return(data)
}
} else {
# quickly get antibiotic codes
vars_ab <- as.ab(data, fast_mode = TRUE)
vars <- data[!is.na(vars_ab)]
}
x <- vapply(FUN.VALUE = character(1),
ab_property(vars, property = property, language = language),
function(x) {
if (property == "atc") {
# try to get the J-group
if (any(x %like% "^J")) {
x[x %like% "^J"][1L]
} else {
as.character(x[1L])
}
} else {
as.character(x[1L])
}
},
USE.NAMES = FALSE)
if (any(x %in% c("", NA))) {
warning_("No ", property, " found for column(s): ", vector_and(vars[x %in% c("", NA)], sort = FALSE), call = FALSE)
x[x %in% c("", NA)] <- vars[x %in% c("", NA)]
}
if (snake_case == TRUE) {
x <- tolower(gsub("[^a-zA-Z0-9]+", "_", x))
}
if (any(duplicated(x))) {
# very hacky way of adding the index to each duplicate
# so "Amoxicillin", "Amoxicillin", "Amoxicillin"
# will be "Amoxicillin", "Amoxicillin_2", "Amoxicillin_3"
invisible(lapply(unique(x),
function(u) {
dups <- which(x == u)
if (length(dups) > 1) {
# there are duplicates
dup_add_int <- dups[2:length(dups)]
x[dup_add_int] <<- paste0(x[dup_add_int], "_", c(2:length(dups)))
}
}))
}
if (is.data.frame(data)) {
colnames(data)[colnames(data) %in% vars] <- x
data
} else {
data[which(!is.na(vars_ab))] <- x
data
}
}
ab_validate <- function(x, property, ...) { ab_validate <- function(x, property, ...) {
check_dataset_integrity() check_dataset_integrity()

2
R/rsi.R
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@ -310,6 +310,8 @@ as.rsi.default <- function(x, ...) {
# remove everything between brackets, and 'high' and 'low' # remove everything between brackets, and 'high' and 'low'
x <- gsub("([(].*[)])", "", x) x <- gsub("([(].*[)])", "", x)
x <- gsub("(high|low)", "", x, ignore.case = TRUE) x <- gsub("(high|low)", "", x, ignore.case = TRUE)
# some labs now report "H" instead of "I" to not interfere with EUCAST prior to 2019
x <- gsub("H", "I", x, ignore.case = TRUE)
# disallow more than 3 characters # disallow more than 3 characters
x[nchar(x) > 3] <- NA x[nchar(x) > 3] <- NA
# set to capitals # set to capitals

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R/sysdata.rda
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R/translate.R
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@ -29,7 +29,7 @@
#' @inheritSection lifecycle Stable Lifecycle #' @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/master/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.). #' @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/master/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$Alpha_2 %in% LANGUAGES_SUPPORTED), "Name"]), quotes = FALSE)`. Please note that currently not all these languages have translations available for all antimicrobial agents and colloquial microorganism names. #' Currently supported languages are: `r vector_and(gsub(";.*", "", ISOcodes::ISO_639_2[which(ISOcodes::ISO_639_2$Alpha_2 %in% LANGUAGES_SUPPORTED), "Name"]), quotes = FALSE)`. All these languages have translations available for all antimicrobial agents and colloquial microorganism names.
#' #'
#' Please suggest your own translations [by creating a new issue on our repository](https://github.com/msberends/AMR/issues/new?title=Translations). #' Please suggest your own translations [by creating a new issue on our repository](https://github.com/msberends/AMR/issues/new?title=Translations).
#' #'
@ -53,17 +53,17 @@
#' mo_name("CoNS", language = "en") #' mo_name("CoNS", language = "en")
#' #> "Coagulase-negative Staphylococcus (CoNS)" #' #> "Coagulase-negative Staphylococcus (CoNS)"
#' #'
#' # German #' # Danish
#' mo_name("CoNS", language = "de") #' mo_name("CoNS", language = "nl")
#' #> "Koagulase-negative Staphylococcus (KNS)" #' #> "Koagulase-negative stafylokokker (CoNS)"
#' #'
#' # Dutch #' # Dutch
#' mo_name("CoNS", language = "nl") #' mo_name("CoNS", language = "nl")
#' #> "Coagulase-negatieve Staphylococcus (CNS)" #' #> "Coagulase-negatieve Staphylococcus (CNS)"
#' #'
#' # Spanish #' # German
#' mo_name("CoNS", language = "es") #' mo_name("CoNS", language = "de")
#' #> "Staphylococcus coagulasa negativo (SCN)" #' #> "Koagulase-negative Staphylococcus (KNS)"
#' #'
#' # Italian #' # Italian
#' mo_name("CoNS", language = "it") #' mo_name("CoNS", language = "it")
@ -72,6 +72,10 @@
#' # Portuguese #' # Portuguese
#' mo_name("CoNS", language = "pt") #' mo_name("CoNS", language = "pt")
#' #> "Staphylococcus coagulase negativo (CoNS)" #' #> "Staphylococcus coagulase negativo (CoNS)"
#'
#' # Spanish
#' mo_name("CoNS", language = "es")
#' #> "Staphylococcus coagulasa negativo (SCN)"
get_locale <- function() { get_locale <- function() {
# AMR versions 1.3.0 and prior used the environmental variable: # AMR versions 1.3.0 and prior used the environmental variable:
if (!identical("", Sys.getenv("AMR_locale"))) { if (!identical("", Sys.getenv("AMR_locale"))) {
@ -108,6 +112,8 @@ coerce_language_setting <- function(lang) {
"de" "de"
} else if (grepl("^(Dutch|Nederlands|nl_|NL_)", lang, ignore.case = FALSE, perl = TRUE)) { } else if (grepl("^(Dutch|Nederlands|nl_|NL_)", lang, ignore.case = FALSE, perl = TRUE)) {
"nl" "nl"
} else if (grepl("^(Danish|Dansk|da_|DA_)", lang, ignore.case = FALSE, perl = TRUE)) {
"da"
} else if (grepl("^(Spanish|Espa.+ol|es_|ES_)", lang, ignore.case = FALSE, perl = TRUE)) { } else if (grepl("^(Spanish|Espa.+ol|es_|ES_)", lang, ignore.case = FALSE, perl = TRUE)) {
"es" "es"
} else if (grepl("^(Italian|Italiano|it_|IT_)", lang, ignore.case = FALSE, perl = TRUE)) { } else if (grepl("^(Italian|Italiano|it_|IT_)", lang, ignore.case = FALSE, perl = TRUE)) {

10
_pkgdown.yml
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@ -203,16 +203,6 @@ reference:
authors: authors:
Matthijs S. Berends: Matthijs S. Berends:
href: https://www.rug.nl/staff/m.s.berends/ href: https://www.rug.nl/staff/m.s.berends/
Christian F. Luz:
href: https://www.rug.nl/staff/c.f.luz/
Alexander W. Friedrich:
href: https://www.rug.nl/staff/a.w.friedrich/
Bhanu N. M. Sinha:
href: https://www.rug.nl/staff/b.sinha/
Casper J. Albers:
href: https://www.rug.nl/staff/c.j.albers/
Corinna Glasner:
href: https://www.rug.nl/staff/c.glasner/
template: template:
bootstrap: 3 bootstrap: 3

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data-raw/AMR_latest.tar.gz
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data-raw/_install_deps.R
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@ -24,15 +24,20 @@
# ==================================================================== # # ==================================================================== #
# some old R instances have trouble installing tinytest, so we ship it too # some old R instances have trouble installing tinytest, so we ship it too
install.packages("data-raw/tinytest_1.3.1.tar.gz", dependencies = c("Depends", "Imports")) install.packages("data-raw/tinytest_1.3.1.tar.gz", dependencies = c("Depends", "Imports", "LinkingTo"))
install.packages("data-raw/AMR_latest.tar.gz", dependencies = FALSE) install.packages("data-raw/AMR_latest.tar.gz", dependencies = FALSE)
pkg_suggests <- gsub("[^a-zA-Z0-9]+", "", pkg_suggests <- gsub("[^a-zA-Z0-9]+", "",
unlist(strsplit(unlist(packageDescription("AMR", unlist(strsplit(unlist(packageDescription("AMR",
fields = c("Suggests", "Enhances"))), fields = c("Suggests", "Enhances", "LinkingTo"))),
split = ", ?"))) split = ", ?")))
cat("Packages listed in Suggests/Enhances:", paste(pkg_suggests, collapse = ", "), "\n") cat("Packages listed in Suggests/Enhances:", paste(pkg_suggests, collapse = ", "), "\n")
if (.Platform$OS.type != "unix") {
# no compiling on Windows here
options(install.packages.compile.from.source = FALSE)
}
to_install <- pkg_suggests[!pkg_suggests %in% rownames(utils::installed.packages())] to_install <- pkg_suggests[!pkg_suggests %in% rownames(utils::installed.packages())]
if (length(to_install) == 0) { if (length(to_install) == 0) {
message("\nNothing to install\n") message("\nNothing to install\n")
@ -40,9 +45,9 @@ if (length(to_install) == 0) {
for (i in seq_len(length(to_install))) { for (i in seq_len(length(to_install))) {
cat("Installing package", to_install[i], "\n") cat("Installing package", to_install[i], "\n")
tryCatch(install.packages(to_install[i], tryCatch(install.packages(to_install[i],
# type = ifelse(.Platform$OS.type == "unix", "source", "binary"), type = "source",
repos = "https://cran.rstudio.com/", repos = "https://cran.rstudio.com/",
dependencies = c("Depends", "Imports"), dependencies = c("Depends", "Imports", "LinkingTo"),
quiet = FALSE), quiet = FALSE),
# message = function(m) invisible(), # message = function(m) invisible(),
warning = function(w) message(w$message), warning = function(w) message(w$message),

510
data-raw/translations.tsv
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@ -1,31 +1,31 @@
pattern regular_expr case_sensitive affect_ab_name affect_mo_name de nl es it fr pt 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 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 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-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 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 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 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 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 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 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 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 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 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 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 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 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 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 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 group TRUE TRUE FALSE TRUE Gruppe groep grupo gruppo groupe grupo gruppe
CoNS FALSE TRUE FALSE TRUE KNS CNS SCN CoNS FALSE TRUE FALSE TRUE KNS CNS SCN
CoPS FALSE TRUE FALSE TRUE KPS CPS SCP 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-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-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 ^Bacteria$ TRUE TRUE FALSE FALSE Bakterien Bacteriën Bacterias Batteri Bactéries Bactérias Bakterier
^Fungi$ TRUE TRUE FALSE FALSE Pilze Schimmels Hongos Funghi Champignons Fungos ^Fungi$ TRUE TRUE FALSE FALSE Pilze Schimmels Hongos Funghi Champignons Fungos Støbeforme
^Yeasts$ TRUE TRUE FALSE FALSE Hefen Gisten Levaduras Lieviti Levures Leveduras ^Yeasts$ TRUE TRUE FALSE FALSE Hefen Gisten Levaduras Lieviti Levures Leveduras Gær
^Protozoa$ TRUE TRUE FALSE FALSE Protozoen Protozoën Protozoarios Protozoi Protozoaires Protozoários ^Protozoa$ TRUE TRUE FALSE FALSE Protozoen Protozoën Protozoarios Protozoi Protozoaires Protozoários Protozoer
biogroup TRUE TRUE FALSE FALSE Biogruppe biogroep biogrupo biogruppo biogroupe biogrupo biogroup TRUE TRUE FALSE FALSE Biogruppe biogroep biogrupo biogruppo biogroupe biogrupo biogruppe
biotype TRUE TRUE FALSE FALSE Biotyp biotipo biotipo biótipo biotype TRUE TRUE FALSE FALSE Biotyp biotipo biotipo biótipo
vegetative TRUE TRUE FALSE FALSE vegetativ vegetatief vegetativo vegetativo végétatif vegetativo 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
@ -38,232 +38,232 @@ susceptible, incr. exp. FALSE TRUE FALSE FALSE empfindlich, erh Belastung gevoel
Susceptible TRUE FALSE FALSE FALSE Empfindlich Gevoelig Susceptible Susceptible TRUE FALSE FALSE FALSE Empfindlich Gevoelig Susceptible
Incr. exposure TRUE FALSE FALSE FALSE Empfindlich, erh Belastung 'Incr. exposure' 'Incr. exposure' Incr. exposure TRUE FALSE FALSE FALSE Empfindlich, erh Belastung 'Incr. exposure' 'Incr. exposure'
Resistant TRUE FALSE FALSE FALSE Resistent Resistent Resistente Resistant TRUE FALSE FALSE FALSE Resistent Resistent Resistente
antibiotic TRUE TRUE FALSE FALSE Antibiotikum antibioticum antibiótico antibiotic TRUE TRUE FALSE FALSE Antibiotikum antibioticum antibiótico antibiotico antibiotique antibiótico antibiotikum
Antibiotic TRUE TRUE FALSE FALSE Antibiotikum Antibioticum Antibiótico Antibiotic TRUE TRUE FALSE FALSE Antibiotikum Antibioticum Antibiótico Antibiotico Antibiotique Antibiótico Antibiotikum
Drug TRUE TRUE FALSE FALSE Medikament Middel Fármaco Drug TRUE TRUE FALSE FALSE Medikament Middel Fármaco Droga Médicament Droga Lægemiddel
drug TRUE TRUE FALSE FALSE Medikament middel fármaco drug TRUE TRUE FALSE FALSE Medikament middel fármaco droga médicament droga lægemiddel
Frequency FALSE TRUE FALSE FALSE Zahl Aantal 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) 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) 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 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 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 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 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 FALSE TRUE TRUE FALSE Amikacin Amikacine Amikacina Amikacin Amikacine Amikacin Amikacin
Amoxicillin FALSE TRUE TRUE FALSE Amoxicillin Amoxicilline Amoxicilina 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 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 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 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 betalactamasa 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 FALSE TRUE TRUE FALSE Anidulafungin Anidulafungine Anidulafungina Anidulafungin Anidulafungine Anidulafungin Anidulafungin
Azidocillin FALSE TRUE TRUE FALSE Azidocillin Azidocilline Azidocilina Azidocillin FALSE TRUE TRUE FALSE Azidocillin Azidocilline Azidocilina Azidocillina Azidocilline Azidocillin Azidocillin
Azithromycin FALSE TRUE TRUE FALSE Azithromycin Azitromycine Azitromicina Azithromycin FALSE TRUE TRUE FALSE Azithromycin Azitromycine Azitromicina Azitromicina Azithromycine Azitromicina Azithromycin
Azlocillin FALSE TRUE TRUE FALSE Azlocillin Azlocilline Azlocilina Azlocillin FALSE TRUE TRUE FALSE Azlocillin Azlocilline Azlocilina Azlocillina Azlocilline Azlocillin Azlocillin
Bacampicillin FALSE TRUE TRUE FALSE Bacampicillin Bacampicilline Bacampicilina Bacampicillin FALSE TRUE TRUE FALSE Bacampicillin Bacampicilline Bacampicilina Bacampicillina Bacampicilline Bacampicilina Bacampicillin
Bacitracin FALSE TRUE TRUE FALSE Bacitracin Bacitracine Bacitracina Bacitracin FALSE TRUE TRUE FALSE Bacitracin Bacitracine Bacitracina Bacitracina Bacitracine Bacitracin Bacitracin
Benzathine benzylpenicillin FALSE TRUE TRUE FALSE Benzathin-Benzylpenicillin Benzylpenicillinebenzathine Bencilpenicilina benzatínica 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 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 Benzylpenicillin FALSE TRUE TRUE FALSE Benzylpenicillin Benzylpenicilline Bencilpenicilina Benzilpenicillina Benzylpénicilline Benzilpenicilina Benzylpenicillin
Calcium aminosalicylate FALSE TRUE TRUE FALSE Kalzium-Aminosalicylat Aminosalicylzuur Aminosalicilato de calcio 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 Capreomycin FALSE TRUE TRUE FALSE Capreomycin Capreomycine Capreomicina Capreomicina Capréomycine Capreomicina Capreomycin
Carbenicillin FALSE TRUE TRUE FALSE Carbenicillin Carbenicilline Carbenicilina Carbenicillin FALSE TRUE TRUE FALSE Carbenicillin Carbenicilline Carbenicilina Carbenicillina Carbénicilline Carbenicilina Carbenicillin
Carindacillin FALSE TRUE TRUE FALSE Carindacillin Carindacilline Carindacilina Carindacillin FALSE TRUE TRUE FALSE Carindacillin Carindacilline Carindacilina Carindacillina Carindacilline Carindacillin Carindacillin
Caspofungin FALSE TRUE TRUE FALSE Caspofungin Caspofungine Caspofungina Caspofungin FALSE TRUE TRUE FALSE Caspofungin Caspofungine Caspofungina Caspofungin Caspofungine Caspofungin Caspofungin
Ce(f|ph)acetrile TRUE TRUE TRUE FALSE Cefacetril Cefacetril Cefacetrilo 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 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 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 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 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 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 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 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 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 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 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 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 Cefodizima 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 Cefonicid 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 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 la betalactamasa 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 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 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 Cefpirome 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 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 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 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 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 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 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 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 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 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 Chloramphenicol FALSE TRUE TRUE FALSE Chloramphenicol Chlooramfenicol Cloranfenicol Cloramfenicolo Chloramphénicol Cloranfenicol Kloramfenicol
Chlortetracycline FALSE TRUE TRUE FALSE Chlortetracyclin Chloortetracycline Clortetraciclina Chlortetracycline FALSE TRUE TRUE FALSE Chlortetracyclin Chloortetracycline Clortetraciclina Clorotetraciclina Chlortétracycline Chlortetracycline Chlortetracyclin
Cinoxacin FALSE TRUE TRUE FALSE Cinoxacin Cinoxacine Cinoxacina Cinoxacin FALSE TRUE TRUE FALSE Cinoxacin Cinoxacine Cinoxacina Cinoxacina Cinoxacine Cinoxacin Cinoxacin
Ciprofloxacin FALSE TRUE TRUE FALSE Ciprofloxacin Ciprofloxacine Ciprofloxacina Ciprofloxacin FALSE TRUE TRUE FALSE Ciprofloxacin Ciprofloxacine Ciprofloxacina Ciprofloxacina Ciprofloxacine Ciprofloxacin Ciprofloxacin
Clarithromycin FALSE TRUE TRUE FALSE Clarithromycin Claritromycine Claritromicina Clarithromycin FALSE TRUE TRUE FALSE Clarithromycin Claritromycine Claritromicina Claritromicina Clarithromycine Claritromicina Clarithromycin
Clavulanic acid FALSE TRUE TRUE FALSE Clavulansäure Clavulaanzuur Ácido clavulánico 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 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 Clindamycin FALSE TRUE TRUE FALSE Clindamycin Clindamycine Clindamicina Clindamicina Clindamycine Clindamicina Clindamycin
Clometocillin FALSE TRUE TRUE FALSE Clometocillin Clometocilline Clometocilina Clometocillin FALSE TRUE TRUE FALSE Clometocillin Clometocilline Clometocilina Clometocillina Clométocilline Clometocillin Clometocillin
Clotrimazole FALSE TRUE TRUE FALSE Clotrimazol Clotrimazol Clotrimazol Clotrimazole FALSE TRUE TRUE FALSE Clotrimazol Clotrimazol Clotrimazol Clotrimazolo Clotrimazole Clotrimazole Clotrimazol
Cloxacillin FALSE TRUE TRUE FALSE Cloxacillin Cloxacilline Cloxacilina Cloxacillin FALSE TRUE TRUE FALSE Cloxacillin Cloxacilline Cloxacilina Cloxacillina Cloxacilline Cloxacillin Cloxacillin
Colistin FALSE TRUE TRUE FALSE Colistin Colistine Colistina Colistin FALSE TRUE TRUE FALSE Colistin Colistine Colistina Colistina Colistine Colistin Colistin
Dapsone FALSE TRUE TRUE FALSE Dapson Dapson Dapsona Dapsone FALSE TRUE TRUE FALSE Dapson Dapson Dapsona Dapsone Dapsone Dapsone Dapson
Daptomycin FALSE TRUE TRUE FALSE Daptomycin Daptomycine Daptomicina Daptomycin FALSE TRUE TRUE FALSE Daptomycin Daptomycine Daptomicina Daptomicina Daptomycine Daptomicina Daptomycin
Dibekacin FALSE TRUE TRUE FALSE Dibekacin Dibekacine Dibekacina Dibekacin FALSE TRUE TRUE FALSE Dibekacin Dibekacine Dibekacina Dibekacin Dibekacine Dibekacin Dibekacin
Dicloxacillin FALSE TRUE TRUE FALSE Dicloxacillin Dicloxacilline Dicloxacilina Dicloxacillin FALSE TRUE TRUE FALSE Dicloxacillin Dicloxacilline Dicloxacilina Dicloxacillina Dicloxacilline Dicloxacilina Dicloxacillin
Dirithromycin FALSE TRUE TRUE FALSE Dirithromycin Diritromycine Diritromicina Dirithromycin FALSE TRUE TRUE FALSE Dirithromycin Diritromycine Diritromicina Diritromicina Dirithromycine Diritromicina Dirithromycin
Econazole FALSE TRUE TRUE FALSE Econazol Econazol Econazol Econazole FALSE TRUE TRUE FALSE Econazol Econazol Econazol Econazolo Econazole Econazole Econazol
Enoxacin FALSE TRUE TRUE FALSE Enoxacin Enoxacine Enoxacina Enoxacin FALSE TRUE TRUE FALSE Enoxacin Enoxacine Enoxacina Enoxacina Enoxacine Enoxacin Enoxacin
Epicillin FALSE TRUE TRUE FALSE Epicillin Epicilline Epicilina Epicillin FALSE TRUE TRUE FALSE Epicillin Epicilline Epicilina Epicillina Epicilline Epicilina Epicillin
Erythromycin FALSE TRUE TRUE FALSE Erythromycin Erytromycine Eritromicina Erythromycin FALSE TRUE TRUE FALSE Erythromycin Erytromycine Eritromicina Eritromicina Erythromycine Eritromicina Erythromycin
Ethambutol/isoniazid FALSE TRUE TRUE FALSE Ethambutol/Isoniazid Ethambutol/isoniazide Etambutol/isoniazida 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 Fleroxacin FALSE TRUE TRUE FALSE Fleroxacin Fleroxacine Fleroxacina Fleroxacina Fléroxacine Fleroxacina Fleroxacin
Flucloxacillin FALSE TRUE TRUE FALSE Flucloxacillin Flucloxacilline Flucloxacilina Flucloxacillin FALSE TRUE TRUE FALSE Flucloxacillin Flucloxacilline Flucloxacilina Flucloxacillina Flucloxacilline Flucloxacillin Flucloxacillin
Fluconazole FALSE TRUE TRUE FALSE Fluconazol Fluconazol Fluconazol Fluconazole FALSE TRUE TRUE FALSE Fluconazol Fluconazol Fluconazol Fluconazolo Fluconazole Fluconazole Fluconazol
Flucytosine FALSE TRUE TRUE FALSE Flucytosin Fluorocytosine Flucitosina Flucytosine FALSE TRUE TRUE FALSE Flucytosin Fluorocytosine Flucitosina Flucytosine Flucytosine Flucytosine Flucytosin
Flurithromycin FALSE TRUE TRUE FALSE Flurithromycin Fluritromycine Fluritromicina Flurithromycin FALSE TRUE TRUE FALSE Flurithromycin Fluritromycine Fluritromicina Fluritromicina Flurithromycine Fluritromicina Flurithromycin
Fosfomycin FALSE TRUE TRUE FALSE Fosfomycin Fosfomycine Fosfomicina Fosfomycin FALSE TRUE TRUE FALSE Fosfomycin Fosfomycine Fosfomicina Fosfomicina Fosfomycine Fosfomycin Fosfomycin
Fusidic acid FALSE TRUE TRUE FALSE Fusidinsäure Fusidinezuur Ácido fusídico 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 Gatifloxacin FALSE TRUE TRUE FALSE Gatifloxacin Gatifloxacine Gatifloxacina Gatifloxacina Gatifloxacine Gatifloxacin Gatifloxacin
Gemifloxacin FALSE TRUE TRUE FALSE Gemifloxacin Gemifloxacine Gemifloxacina Gemifloxacin FALSE TRUE TRUE FALSE Gemifloxacin Gemifloxacine Gemifloxacina Gemifloxacina Gemifloxacine Gemifloxacin Gemifloxacin
Gentamicin FALSE TRUE TRUE FALSE Gentamicin Gentamicine Gentamicina Gentamicin FALSE TRUE TRUE FALSE Gentamicin Gentamicine Gentamicina Gentamicina Gentamicine Gentamicina Gentamicin
Grepafloxacin FALSE TRUE TRUE FALSE Grepafloxacin Grepafloxacine Grepafloxacina Grepafloxacin FALSE TRUE TRUE FALSE Grepafloxacin Grepafloxacine Grepafloxacina Grepafloxacina Grepafloxacine Grepafloxacin Grepafloxacin
Hachimycin FALSE TRUE TRUE FALSE Hachimycin Hachimycine Hachimycin Hachimycin FALSE TRUE TRUE FALSE Hachimycin Hachimycine Hachimycin Hachimycin Hachimycine Hachimycin Hachimycin
Hetacillin FALSE TRUE TRUE FALSE Hetacillin Hetacilline Hetacilina 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/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 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 Isepamicin FALSE TRUE TRUE FALSE Isepamicin Isepamicine Isepamicina Isepamicina Isepamicine Isepamicina Isepamicin
Isoconazole FALSE TRUE TRUE FALSE Isoconazol Isoconazol Isoconazol Isoconazole FALSE TRUE TRUE FALSE Isoconazol Isoconazol Isoconazol Isoconazolo Isoconazole Isoconazole Isoconazol
Isoniazid FALSE TRUE TRUE FALSE Isoniazid Isoniazide Isoniazida Isoniazid FALSE TRUE TRUE FALSE Isoniazid Isoniazide Isoniazida Isoniazide Isoniazide Isoniazid Isoniazid
Itraconazole FALSE TRUE TRUE FALSE Itraconazol Itraconazol Itraconazol Itraconazole FALSE TRUE TRUE FALSE Itraconazol Itraconazol Itraconazol Itraconazolo Itraconazole Itraconazole Itraconazol
Josamycin FALSE TRUE TRUE FALSE Josamycin Josamycine Josamicina Josamycin FALSE TRUE TRUE FALSE Josamycin Josamycine Josamicina Josamicina Josamycine Josamycin Josamycin
Kanamycin FALSE TRUE TRUE FALSE Kanamycin Kanamycine Kanamicina Kanamycin FALSE TRUE TRUE FALSE Kanamycin Kanamycine Kanamicina Kanamicina Kanamycine Kanamycin Kanamycin
Ketoconazole FALSE TRUE TRUE FALSE Ketoconazol Ketoconazol Ketoconazol Ketoconazole FALSE TRUE TRUE FALSE Ketoconazol Ketoconazol Ketoconazol Ketoconazolo Kétoconazole Ketoconazole Ketoconazol
Levofloxacin FALSE TRUE TRUE FALSE Levofloxacin Levofloxacine Levofloxacina Levofloxacin FALSE TRUE TRUE FALSE Levofloxacin Levofloxacine Levofloxacina Levofloxacina Lévofloxacine Levofloxacin Levofloxacin
Lincomycin FALSE TRUE TRUE FALSE Lincomycin Lincomycine Lincomicina Lincomycin FALSE TRUE TRUE FALSE Lincomycin Lincomycine Lincomicina Lincomicina Lincomycine Lincomycin Lincomycin
Lomefloxacin FALSE TRUE TRUE FALSE Lomefloxacin Lomefloxacine Lomefloxacina Lomefloxacin FALSE TRUE TRUE FALSE Lomefloxacin Lomefloxacine Lomefloxacina Lomefloxacina Loméfloxacine Lomefloxacin Lomefloxacin
Lysozyme FALSE TRUE TRUE FALSE Lysozym Lysozym Lisozima Lysozyme FALSE TRUE TRUE FALSE Lysozym Lysozym Lisozima Lisozima Lysozyme Lysozyme Lysozym
Mandelic acid FALSE TRUE TRUE FALSE Mandelsäure Amandelzuur Ácido mandélico 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 Metampicillin FALSE TRUE TRUE FALSE Metampicillin Metampicilline Metampicilina Metampicillina Métampicilline Metampicilina Metampicillin
Meticillin FALSE TRUE TRUE FALSE Meticillin Meticilline Meticilina Meticillin FALSE TRUE TRUE FALSE Meticillin Meticilline Meticilina Meticillina Méticilline Meticillin Meticillin
Metisazone FALSE TRUE TRUE FALSE Metisazon Metisazon Metisazona Metisazone FALSE TRUE TRUE FALSE Metisazon Metisazon Metisazona Metisazone Métisazone Metisazone Metisazon
Metronidazole FALSE TRUE TRUE FALSE Metronidazol Metronidazol Metronidazol Metronidazole FALSE TRUE TRUE FALSE Metronidazol Metronidazol Metronidazol Metronidazolo Métronidazole Metronidazol Metronidazol
Mezlocillin FALSE TRUE TRUE FALSE Mezlocillin Mezlocilline Mezlocilina Mezlocillin FALSE TRUE TRUE FALSE Mezlocillin Mezlocilline Mezlocilina Mezlocillina Mezlocilline Mezlocillin Mezlocillin
Micafungin FALSE TRUE TRUE FALSE Micafungin Micafungine Micafungina Micafungin FALSE TRUE TRUE FALSE Micafungin Micafungine Micafungina Micafungin Micafungine Micafungin Micafungin
Miconazole FALSE TRUE TRUE FALSE Miconazol Miconazol Miconazol Miconazole FALSE TRUE TRUE FALSE Miconazol Miconazol Miconazol Miconazolo Miconazole Miconazole Miconazol
Midecamycin FALSE TRUE TRUE FALSE Midecamycin Midecamycine Midecamicina Midecamycin FALSE TRUE TRUE FALSE Midecamycin Midecamycine Midecamicina Midecamicina Midecamycine Midecamycin Midecamycin
Miocamycin FALSE TRUE TRUE FALSE Miocamycin Miocamycine Miocamycin Miocamycin FALSE TRUE TRUE FALSE Miocamycin Miocamycine Miocamycin Miocamicina Miocamycine Miocamicina Miocamycin
Moxifloxacin FALSE TRUE TRUE FALSE Moxifloxacin Moxifloxacine Moxifloxacina Moxifloxacin FALSE TRUE TRUE FALSE Moxifloxacin Moxifloxacine Moxifloxacina Moxifloxacin Moxifloxacine Moxifloxacina Moxifloxacin
Mupirocin FALSE TRUE TRUE FALSE Mupirocin Mupirocine Mupirocina Mupirocin FALSE TRUE TRUE FALSE Mupirocin Mupirocine Mupirocina Mupirocina Mupirocine Mupirocina Mupirocin
Nalidixic acid FALSE TRUE TRUE FALSE Nalidixinsäure Nalidixinezuur Ácido nalidíxico 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 Neomycin FALSE TRUE TRUE FALSE Neomycin Neomycine Neomicina Neomicina Néomycine Neomicina Neomycin
Netilmicin FALSE TRUE TRUE FALSE Netilmicin Netilmicine Netilmicina Netilmicin FALSE TRUE TRUE FALSE Netilmicin Netilmicine Netilmicina Netilmicin Netilmicine Netilmicin Netilmicin
Nitrofurantoin FALSE TRUE TRUE FALSE Nitrofurantoin Nitrofurantoine Nitrofurantoína Nitrofurantoin FALSE TRUE TRUE FALSE Nitrofurantoin Nitrofurantoine Nitrofurantoína Nitrofurantoina Nitrofurantoïne Nitrofurantoína Nitrofurantoin
Norfloxacin FALSE TRUE TRUE FALSE Norfloxacin Norfloxacine Norfloxacina Norfloxacin FALSE TRUE TRUE FALSE Norfloxacin Norfloxacine Norfloxacina Norfloxacina Norfloxacine Norfloxacin Norfloxacin
Novobiocin FALSE TRUE TRUE FALSE Novobiocin Novobiocine Novobiocina Novobiocin FALSE TRUE TRUE FALSE Novobiocin Novobiocine Novobiocina Novobiocin Novobiocine Novobiocin Novobiocin
Nystatin FALSE TRUE TRUE FALSE Nystatin Nystatine Nistatina Nystatin FALSE TRUE TRUE FALSE Nystatin Nystatine Nistatina Nystatin Nystatine Nystatin Nystatin
Ofloxacin FALSE TRUE TRUE FALSE Ofloxacin Ofloxacine Ofloxacina Ofloxacin FALSE TRUE TRUE FALSE Ofloxacin Ofloxacine Ofloxacina Ofloxacin Ofloxacine Ofloxacin Ofloxacin
Oleandomycin FALSE TRUE TRUE FALSE Oleandomycin Oleandomycine Oleandomicina Oleandomycin FALSE TRUE TRUE FALSE Oleandomycin Oleandomycine Oleandomicina Oleandomicina Oleandomycine Oleandomicina Oleandomycin
Ornidazole FALSE TRUE TRUE FALSE Ornidazol Ornidazol Ornidazol Ornidazole FALSE TRUE TRUE FALSE Ornidazol Ornidazol Ornidazol Ornidazolo Ornidazole Ornidazole Ornidazol
Oxacillin FALSE TRUE TRUE FALSE Oxacillin Oxacilline Oxacilina Oxacillin FALSE TRUE TRUE FALSE Oxacillin Oxacilline Oxacilina Oxacillina Oxacilline Oxacillin Oxacillin
Oxolinic acid FALSE TRUE TRUE FALSE Oxolinsäure Oxolinezuur Ácido oxolínico 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 Oxytetracycline FALSE TRUE TRUE FALSE Oxytetracyclin Oxytetracycline Oxitetraciclina Ossitetraciclina Oxytétracycline Oxitetraciclina Oxytetracyclin
Pazufloxacin FALSE TRUE TRUE FALSE Pazufloxacin Pazufloxacine Pazufloxacina Pazufloxacin FALSE TRUE TRUE FALSE Pazufloxacin Pazufloxacine Pazufloxacina Pazufloxacin Pazufloxacine Pazufloxacin Pazufloxacin
Pefloxacin FALSE TRUE TRUE FALSE Pefloxacin Pefloxacine Pefloxacina Pefloxacin FALSE TRUE TRUE FALSE Pefloxacin Pefloxacine Pefloxacina Pefloxacina Péfloxacine Pefloxacin Pefloxacin
Penamecillin FALSE TRUE TRUE FALSE Penamecillin Penamecilline Penamecilina Penamecillin FALSE TRUE TRUE FALSE Penamecillin Penamecilline Penamecilina Penamecillina Pénamécilline Penamecilina Penamecillin
Penicillin FALSE TRUE TRUE FALSE Penicillin Penicilline Penicilina Penicillin FALSE TRUE TRUE FALSE Penicillin Penicilline Penicilina Penicillina Pénicilline Penicilina Penicillin
Pheneticillin FALSE TRUE TRUE FALSE Pheneticillin Feneticilline Feneticilina Pheneticillin FALSE TRUE TRUE FALSE Pheneticillin Feneticilline Feneticilina Feneticillina Phénéticilline Pheneticillin Pheneticillin
Phenoxymethylpenicillin FALSE TRUE TRUE FALSE Phenoxymethylpenicillin Fenoxymethylpenicilline Fenoximetilpenicilina Phenoxymethylpenicillin FALSE TRUE TRUE FALSE Phenoxymethylpenicillin Fenoxymethylpenicilline Fenoximetilpenicilina Fenossimetilpenicillina Phénoxyméthylpénicilline Fenoximetilpenicilina Phenoxymethylpenicillin
Pipemidic acid FALSE TRUE TRUE FALSE Pipemidinsäure Pipemidinezuur Ácido pipemídico 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 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 betalactamasa 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 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 Pivampicillin FALSE TRUE TRUE FALSE Pivampicillin Pivampicilline Pivampicilina Pivampicillina Pivampicilline Pivampicilina Pivampicillin
Polymyxin B FALSE TRUE TRUE FALSE Polymyxin B Polymyxine B Polimixina B 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 Posaconazole FALSE TRUE TRUE FALSE Posaconazol Posaconazol Posaconazol Posaconazolo Posaconazole Posaconazole Posaconazol
Pristinamycin FALSE TRUE TRUE FALSE Pristinamycin Pristinamycine Pristinamicina Pristinamycin FALSE TRUE TRUE FALSE Pristinamycin Pristinamycine Pristinamicina Pristinamicina Pristinamycine Pristinamicina Pristinamycin
Procaine benzylpenicillin FALSE TRUE TRUE FALSE Procain-Benzylpenicillin Benzylpenicillineprocaine Bencilpenicilina procaína 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 Propicillin FALSE TRUE TRUE FALSE Propicillin Propicilline Propicilina Propicillina Propicilline Propicilina Propicillin
Prulifloxacin FALSE TRUE TRUE FALSE Prulifloxacin Prulifloxacine Prulifloxacina Prulifloxacin FALSE TRUE TRUE FALSE Prulifloxacin Prulifloxacine Prulifloxacina Prulifloxacina Prulifloxacine Prulifloxacina Prulifloxacin
Quinupristin/dalfopristin FALSE TRUE TRUE FALSE Quinupristin/Dalfopristin Quinupristine/dalfopristine Quinupristina/dalfopristina 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 Ribostamycin FALSE TRUE TRUE FALSE Ribostamycin Ribostamycine Ribostamicina Ribostamicina Ribostamycine Ribostamicina Ribostamycin
Rifabutin FALSE TRUE TRUE FALSE Rifabutin Rifabutine Rifabutina Rifabutin FALSE TRUE TRUE FALSE Rifabutin Rifabutine Rifabutina Rifabutina Rifabutine Rifabutin Rifabutin
Rifampicin FALSE TRUE TRUE FALSE Rifampicin Rifampicine Rifampicina 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 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 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 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 Rifamycin FALSE TRUE TRUE FALSE Rifamycin Rifamycine Rifamicina Rifamicina Rifamycine Rifamycin Rifamycin
Rifaximin FALSE TRUE TRUE FALSE Rifaximin Rifaximine Rifaximina Rifaximin FALSE TRUE TRUE FALSE Rifaximin Rifaximine Rifaximina Rifaximina Rifaximine Rifaximin Rifaximin
Rokitamycin FALSE TRUE TRUE FALSE Rokitamycin Rokitamycine Rokitamicina Rokitamycin FALSE TRUE TRUE FALSE Rokitamycin Rokitamycine Rokitamicina Rokitamicina Rokitamycine Rokitamycin Rokitamycin
Rosoxacin FALSE TRUE TRUE FALSE Rosoxacin Rosoxacine Rosoxacina Rosoxacin FALSE TRUE TRUE FALSE Rosoxacin Rosoxacine Rosoxacina Rosoxacina Rosoxacine Rosoxacina Rosoxacin
Roxithromycin FALSE TRUE TRUE FALSE Roxithromycin Roxitromycine Roxitromicina Roxithromycin FALSE TRUE TRUE FALSE Roxithromycin Roxitromycine Roxitromicina Roxitromicina Roxithromycine Roxitromicina Roxithromycin
Rufloxacin FALSE TRUE TRUE FALSE Rufloxacin Rufloxacine Rufloxacina Rufloxacin FALSE TRUE TRUE FALSE Rufloxacin Rufloxacine Rufloxacina Rufloxacina Rufloxacine Rufloxacin Rufloxacin
Sisomicin FALSE TRUE TRUE FALSE Sisomicin Sisomicine Sisomicina Sisomicin FALSE TRUE TRUE FALSE Sisomicin Sisomicine Sisomicina Sisomicina Sisomicine Sisomicina Sisomicin
Sodium aminosalicylate FALSE TRUE TRUE FALSE Natrium-Aminosalicylat Aminosalicylzuur Aminosalicilato de sodio 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 Sparfloxacin FALSE TRUE TRUE FALSE Sparfloxacin Sparfloxacine Esparfloxacina Sparfloxacina Sparfloxacine Sparfloxacin Sparfloxacin
Spectinomycin FALSE TRUE TRUE FALSE Spectinomycin Spectinomycine Espectinomicina Spectinomycin FALSE TRUE TRUE FALSE Spectinomycin Spectinomycine Espectinomicina Spectinomycin Spectinomycine Spectinomycin Spectinomycin
Spiramycin FALSE TRUE TRUE FALSE Spiramycin Spiramycine Espiramicina Spiramycin FALSE TRUE TRUE FALSE Spiramycin Spiramycine Espiramicina Spiramicina Spiramycine Spiramycin Spiramycin
Spiramycin/metronidazole FALSE TRUE TRUE FALSE Spiramycin/Metronidazol Spiramycine/metronidazol Espiramicina/metronidazol 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 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 FALSE TRUE TRUE FALSE Streptoduocin Streptoduocine Estreptoduocina Streptoduocin Streptoduocine Estreptoduocina Streptoduocin
Streptomycin FALSE TRUE TRUE FALSE Streptomycin Streptomycine Estreptomicina Streptomycin FALSE TRUE TRUE FALSE Streptomycin Streptomycine Estreptomicina Streptomicina Streptomycine Streptomycin Streptomycin
Streptomycin/isoniazid FALSE TRUE TRUE FALSE Streptomycin/Isoniazid Streptomycine/isoniazide Estreptomicina/isoniazida 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 Sulbenicillin FALSE TRUE TRUE FALSE Sulbenicillin Sulbenicilline Sulbenicilina Sulbenicillina Sulbenicilline Sulbenicilina Sulbenicillin
Sulfadiazine/tetroxoprim FALSE TRUE TRUE FALSE Sulfadiazin/Tetroxoprim Sulfadiazine/tetroxoprim Sulfadiazina/tetroxoprima 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 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 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 Sulfafurazole FALSE TRUE TRUE FALSE Sulfafurazol Sulfafurazol Sulfafurazol Sulfafurazolo Sulfafurazole Sulfafurazole Sulfafurazol
Sulfaisodimidine FALSE TRUE TRUE FALSE Sulfaisodimidin Sulfisomidine Sulfaisodimidina Sulfaisodimidine FALSE TRUE TRUE FALSE Sulfaisodimidin Sulfisomidine Sulfaisodimidina Sulfaisodimidina Sulfaisodimidine Sulfaisodimidina Sulfaisodimidin
Sulfalene FALSE TRUE TRUE FALSE Sulfalene Sulfaleen Sulfaleno Sulfalene FALSE TRUE TRUE FALSE Sulfalene Sulfaleen Sulfaleno Sulfalene Sulfalène Sulfaleno Sulfalen
Sulfamazone FALSE TRUE TRUE FALSE Sulfamazon Sulfamazon Sulfamazona Sulfamazone FALSE TRUE TRUE FALSE Sulfamazon Sulfamazon Sulfamazona Sulfamazone Sulfamazone Sulfamazona Sulfamazon
Sulfamerazine/trimethoprim FALSE TRUE TRUE FALSE Sulfamerazin/Trimethoprim Sulfamerazine/trimethoprim Sulfamerazina/trimetoprima 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 Sulfamethizole FALSE TRUE TRUE FALSE Sulfamethizol Sulfamethizol Sulfametozol Sulfamethizolo Sulfaméthizole Sulfametizole Sulfamethizol
Sulfamethoxazole FALSE TRUE TRUE FALSE Sulfamethoxazol Sulfamethoxazol Sulfametoxazol Sulfamethoxazole FALSE TRUE TRUE FALSE Sulfamethoxazol Sulfamethoxazol Sulfametoxazol Sulfametossazolo Sulfaméthoxazole Sulfamethoxazole Sulfamethoxazol
Sulfamethoxazole/trimethoprim FALSE TRUE TRUE FALSE Sulfamethoxazol/Trimethoprim Sulfamethoxazol/trimethoprim Sulfametoxazol/trimetoprima 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 FALSE TRUE TRUE FALSE Sulfametoxydiazin Sulfamethoxydiazine Sulfametoxidiazina Sulfametoxydiazine Sulfamétoxydiazine Sulfametoxidiazina Sulfametoxydiazin
Sulfametrole/trimethoprim FALSE TRUE TRUE FALSE Sulfametrole/Trimethoprim Sulfametrol/trimethoprim Sulfametrole/trimethoprim 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 Sulfamoxole FALSE TRUE TRUE FALSE Sulfamoxol Sulfamoxol Sulfamoxole Sulfamoxolo Sulfamoxole Sulfamoxole Sulfamoxol
Sulfamoxole/trimethoprim FALSE TRUE TRUE FALSE Sulfamoxol/Trimethoprim Sulfamoxol/trimethoprim Sulfamoxol/trimetoprima 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 Sulfaproxeno Sulfaperin FALSE TRUE TRUE FALSE Sulfaperin Sulfaperine Sulfametoxazol Sulfaperin Sulfapérine Sulfaperin Sulfaperin
Sulfaphenazole FALSE TRUE TRUE FALSE Sulfaphenazol Sulfafenazol Sulfafenazol Sulfaphenazole FALSE TRUE TRUE FALSE Sulfaphenazol Sulfafenazol Sulfafenazol Sulfafenazolo Sulfaphénazole Sulfafenazol Sulfaphenazol
Sulfathiazole FALSE TRUE TRUE FALSE Sulfathiazol Sulfathiazol Sulfatiazol Sulfathiazole FALSE TRUE TRUE FALSE Sulfathiazol Sulfathiazol Sulfatiazol Sulfathiazole Sulfathiazole Sulfatazol Sulfathiazol
Sulfathiourea FALSE TRUE TRUE FALSE Sulfathioharnstoff Sulfathioureum Sulfathiourea Sulfathiourea FALSE TRUE TRUE FALSE Sulfathioharnstoff Sulfathioureum Sulfathiourea Sulfathiourea Sulfathiourée Sulfathiourea Sulfathiourea
Sultamicillin FALSE TRUE TRUE FALSE Sultamicillin Sultamicilline Sultamicilina Sultamicillin FALSE TRUE TRUE FALSE Sultamicillin Sultamicilline Sultamicilina Sultamicillina Sultamicilline Sultamicillin Sultamicillin
Talampicillin FALSE TRUE TRUE FALSE Talampicillin Talampicilline Talampicilina Talampicillin FALSE TRUE TRUE FALSE Talampicillin Talampicilline Talampicilina Talampicillina Talampicilline Talampicilina Talampicillin
Teicoplanin FALSE TRUE TRUE FALSE Teicoplanin Teicoplanine Teicoplanina Teicoplanin FALSE TRUE TRUE FALSE Teicoplanin Teicoplanine Teicoplanina Teicoplanina Teicoplanine Teicoplanin Teicoplanin
Telithromycin FALSE TRUE TRUE FALSE Telithromycin Telitromycine Telitromicina Telithromycin FALSE TRUE TRUE FALSE Telithromycin Telitromycine Telitromicina Telitromicina Télithromycine Telitromicina Telithromycin
Temafloxacin FALSE TRUE TRUE FALSE Temafloxacin Temafloxacine Temafloxacina Temafloxacin FALSE TRUE TRUE FALSE Temafloxacin Temafloxacine Temafloxacina Temafloxacina Temafloxacine Temafloxacin Temafloxacin
Temocillin FALSE TRUE TRUE FALSE Temocillin Temocilline Temocilina 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 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 FALSE TRUE TRUE FALSE Terizidon Terizidon Terizidona Terizidone Terizidone Terizidone Terizidon
Thiamphenicol FALSE TRUE TRUE FALSE Thiamphenicol Thiamfenicol Tiamfenicol Thiamphenicol FALSE TRUE TRUE FALSE Thiamphenicol Thiamfenicol Tiamfenicol Tiamfenicolo Thiamphénicol Tiamfenicol Thiamphenicol
Thioacetazone/isoniazid FALSE TRUE TRUE FALSE Thioacetazon/Isoniazid Thioacetazon/isoniazide Tioacetazona/isoniazida 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 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 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 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 Tinidazole FALSE TRUE TRUE FALSE Tinidazol Tinidazol Tinidazol Tinidazolo Tinidazole Tinidazole Tinidazol
Tobramycin FALSE TRUE TRUE FALSE Tobramycin Tobramycine Tobramicina Tobramycin FALSE TRUE TRUE FALSE Tobramycin Tobramycine Tobramicina Tobramicina Tobramycine Tobramycin Tobramycin
Trimethoprim/sulfamethoxazole FALSE TRUE TRUE FALSE Trimethoprim/Sulfamethoxazol Cotrimoxazol Trimetoprima/sulfametoxazol 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 Troleandomycin FALSE TRUE TRUE FALSE Troleandomycin Troleandomycine Troleandomicina Troleandomicina Troleandomycine Troleandomicina Troleandomycin
Trovafloxacin FALSE TRUE TRUE FALSE Trovafloxacin Trovafloxacine Trovafloxacina Trovafloxacin FALSE TRUE TRUE FALSE Trovafloxacin Trovafloxacine Trovafloxacina Trovafloxacin Trovafloxacine Trovafloxacin Trovafloxacin
Vancomycin FALSE TRUE TRUE FALSE Vancomycin Vancomycine Vancomicina Vancomycin FALSE TRUE TRUE FALSE Vancomycin Vancomycine Vancomicina Vancomicina Vancomycine Vancomycin Vancomycin
Voriconazole FALSE TRUE TRUE FALSE Voriconazol Voriconazol Voriconazol Voriconazole FALSE TRUE TRUE FALSE Voriconazol Voriconazol Voriconazol Voriconazolo Voriconazole Voriconazol Voriconazol
Aminoglycosides FALSE TRUE TRUE FALSE Aminoglykoside Aminoglycosiden Aminoglucósidos Aminoglycosides FALSE TRUE TRUE FALSE Aminoglykoside Aminoglycosiden Aminoglucósidos Aminoglicosidi Aminoglycosides Aminoglycosides Aminoglykosider
Amphenicols FALSE TRUE TRUE FALSE Amphenicole Amfenicolen Anfenicoles Amphenicols FALSE TRUE TRUE FALSE Amphenicole Amfenicolen Anfenicoles Amphenicols Amphénicols Anfenicóis Amphenicoler
Antifungals/antimycotics FALSE TRUE TRUE FALSE Antimykotika/Antimykotika Antifungica/antimycotica Antifúngicos/antimicóticos 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 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-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.) 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.) 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.) 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 (4º 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.) 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 (no clasificado) 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 Cephalosporins FALSE TRUE TRUE FALSE Cephalosporine Cefalosporines Cefalosporinas Cefalosporine Céphalosporines Cefalosporinas Cefalosporiner
Glycopeptides FALSE TRUE TRUE FALSE Glykopeptide Glycopeptiden Glicopéptidos Glycopeptides FALSE TRUE TRUE FALSE Glykopeptide Glycopeptiden Glicopéptidos Glicopeptidi Glycopeptides Glycopeptides Glykopeptider
Macrolides/lincosamides FALSE TRUE TRUE FALSE Makrolide/Linkosamide Macroliden/lincosamiden Macrólidos/lincosamidas 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 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 Polymyxins FALSE TRUE TRUE FALSE Polymyxine Polymyxines Polimixinas Polimixine Polymyxines Polimixinas Polymyxiner
Quinolones FALSE TRUE TRUE FALSE Quinolone Quinolonen Quinolonas Quinolones FALSE TRUE TRUE FALSE Quinolone Quinolonen Quinolonas Chinoloni Quinolones Quinolones Kinoloner

1 pattern regular_expr case_sensitive affect_ab_name affect_mo_name de nl es it fr pt da
2 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
3 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
4 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
5 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
6 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
7 unknown fungus TRUE TRUE FALSE TRUE unbekannter Pilze onbekende schimmel hongo desconocido fungo sconosciuto champignon inconnu fungo desconhecido ukendt svamp
8 unknown yeast TRUE TRUE FALSE TRUE unbekannte Hefe onbekende gist levadura desconocida lievito sconosciuto levure inconnue levedura desconhecida ukendt gær
9 unknown name TRUE TRUE FALSE TRUE unbekannte Name onbekende naam nombre desconocido nome sconosciuto nom inconnu nome desconhecido ukendt navn
10 unknown kingdom TRUE TRUE FALSE TRUE unbekanntes Reich onbekend koninkrijk reino desconocido regno sconosciuto règme inconnu reino desconhecido ukendt kongerige
11 unknown phylum TRUE TRUE FALSE TRUE unbekannter Stamm onbekend fylum filo desconocido phylum sconosciuto embranchement inconnu filo desconhecido ukendt stamme
12 unknown class TRUE TRUE FALSE TRUE unbekannte Klasse onbekende klasse clase desconocida classe sconosciuta classe inconnue classe desconhecida ukendt klasse
13 unknown order TRUE TRUE FALSE TRUE unbekannte Ordnung onbekende orde orden desconocido ordine sconosciuto ordre inconnu ordem desconhecido ukendt orden
14 unknown family TRUE TRUE FALSE TRUE unbekannte Familie onbekende familie familia desconocida famiglia sconosciuta famille inconnue família desconhecida ukendt familie
15 unknown genus TRUE TRUE FALSE TRUE unbekannte Gattung onbekend geslacht género desconocido genere sconosciuto genre inconnu gênero desconhecido ukendt slægt
16 unknown species TRUE TRUE FALSE TRUE unbekannte Art onbekende soort especie desconocida specie sconosciute espèce inconnue espécies desconhecida ukendt art
17 unknown subspecies TRUE TRUE FALSE TRUE unbekannte Unterart onbekende ondersoort subespecie desconocida sottospecie sconosciute sous-espèce inconnue subespécies desconhecida ukendt underart
18 unknown rank TRUE TRUE FALSE TRUE unbekannter Rang onbekende rang rango desconocido grado sconosciuto rang inconnu classificação desconhecido ukendt rang
19 group TRUE TRUE FALSE TRUE Gruppe groep grupo gruppo groupe grupo gruppe
20 CoNS FALSE TRUE FALSE TRUE KNS CNS SCN
21 CoPS FALSE TRUE FALSE TRUE KPS CPS SCP
22 Gram-negative TRUE TRUE FALSE FALSE Gramnegativ Gram-negatief Gram negativo Gram negativo Gram négatif Gram negativo Gram-negativ
23 Gram-positive TRUE TRUE FALSE FALSE Grampositiv Gram-positief Gram positivo Gram positivo Gram positif Gram positivo Gram-positiv
24 ^Bacteria$ TRUE TRUE FALSE FALSE Bakterien Bacteriën Bacterias Batteri Bactéries Bactérias Bakterier
25 ^Fungi$ TRUE TRUE FALSE FALSE Pilze Schimmels Hongos Funghi Champignons Fungos Støbeforme
26 ^Yeasts$ TRUE TRUE FALSE FALSE Hefen Gisten Levaduras Lieviti Levures Leveduras Gær
27 ^Protozoa$ TRUE TRUE FALSE FALSE Protozoen Protozoën Protozoarios Protozoi Protozoaires Protozoários Protozoer
28 biogroup TRUE TRUE FALSE FALSE Biogruppe biogroep biogrupo biogruppo biogroupe biogrupo biogruppe
29 biotype TRUE TRUE FALSE FALSE Biotyp biotipo biotipo biótipo
30 vegetative TRUE TRUE FALSE FALSE vegetativ vegetatief vegetativo vegetativo végétatif vegetativo
31 ([([ ]*?)group TRUE TRUE FALSE FALSE \\1Gruppe \\1groep \\1grupo \\1gruppo \\1groupe \\1grupo
38 Susceptible TRUE FALSE FALSE FALSE Empfindlich Gevoelig Susceptible
39 Incr. exposure TRUE FALSE FALSE FALSE Empfindlich, erh Belastung 'Incr. exposure' 'Incr. exposure'
40 Resistant TRUE FALSE FALSE FALSE Resistent Resistent Resistente
41 antibiotic TRUE TRUE FALSE FALSE Antibiotikum antibioticum antibiótico antibiotico antibiotique antibiótico antibiotikum
42 Antibiotic TRUE TRUE FALSE FALSE Antibiotikum Antibioticum Antibiótico Antibiotico Antibiotique Antibiótico Antibiotikum
43 Drug TRUE TRUE FALSE FALSE Medikament Middel Fármaco Droga Médicament Droga Lægemiddel
44 drug TRUE TRUE FALSE FALSE Medikament middel fármaco droga médicament droga lægemiddel
45 Frequency FALSE TRUE FALSE FALSE Zahl Aantal Frecuencia Frequenza Fréquence Frequência Frekvens
46 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)
47 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)
48 Antimicrobial Interpretation FALSE FALSE FALSE FALSE Antimikrobielle Auswertung Antimicrobiële interpretatie Interpretación antimicrobiana Interpretazione antimicrobica Interprétation antimicrobienne Interpretação Antimicrobiana Antimikrobiel fortolkning
49 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
50 Adefovir dipivoxil FALSE TRUE TRUE FALSE Adefovir Dipivoxil Adefovir Adefovir dipivoxil Adefovir dipivoxil Adéfovir dipivoxil Adefovir dipivoxil Adefovir dipivoxil
51 Aldesulfone sodium FALSE TRUE TRUE FALSE Aldesulfon-Natrium Aldesulfon Aldesulfona sódica Aldesulfone sodio Aldésulfone sodique Aldesulfona de sódio Aldesulfon-natrium
52 Amikacin FALSE TRUE TRUE FALSE Amikacin Amikacine Amikacina Amikacin Amikacine Amikacin Amikacin
53 Amoxicillin FALSE TRUE TRUE FALSE Amoxicillin Amoxicilline Amoxicilina Amoxicillina Amoxicilline Amoxicilina Amoxicillin
54 Amoxicillin/beta-lactamase inhibitor FALSE TRUE TRUE FALSE Amoxicillin/Beta-Lactamase-Hemmer Amoxicilline/enzymremmer amoxicilina/inhib. de la beta-lactamasa Amoxicilina/inhib. de la beta-lactamasa Amoxicillina/inib. d. beta-lattamasi Amoxicilline/inhib. de bêta-lactamase Amoxicilina/inibid. da beta-lactamase Amoxicillin/beta-lactamasehæmmer
55 Amphotericin B FALSE TRUE TRUE FALSE Amphotericin B Amfotericine B Anfotericina B Amfotericina B Amphotéricine B Anfotericina B Amfotericin B
56 Ampicillin FALSE TRUE TRUE FALSE Ampicillin Ampicilline Ampicilina Ampicillina Ampicilline Ampicilina Ampicillin
57 Ampicillin/beta-lactamase inhibitor FALSE TRUE TRUE FALSE Ampicillin/Beta-Laktamase-Hemmer Ampicilline/enzymremmer Ampicilina/inhib. de la betalactamasa Ampicilina/inhib. de la beta-lactamasa Ampicillina/inib. d. beta-lattamasi Ampicilline/inhib. de bêta-lactamase Ampicilina/inibid. da beta-lactamase Ampicillin/beta-lactamasehæmmer
58 Anidulafungin FALSE TRUE TRUE FALSE Anidulafungin Anidulafungine Anidulafungina Anidulafungin Anidulafungine Anidulafungin Anidulafungin
59 Azidocillin FALSE TRUE TRUE FALSE Azidocillin Azidocilline Azidocilina Azidocillina Azidocilline Azidocillin Azidocillin
60 Azithromycin FALSE TRUE TRUE FALSE Azithromycin Azitromycine Azitromicina Azitromicina Azithromycine Azitromicina Azithromycin
61 Azlocillin FALSE TRUE TRUE FALSE Azlocillin Azlocilline Azlocilina Azlocillina Azlocilline Azlocillin Azlocillin
62 Bacampicillin FALSE TRUE TRUE FALSE Bacampicillin Bacampicilline Bacampicilina Bacampicillina Bacampicilline Bacampicilina Bacampicillin
63 Bacitracin FALSE TRUE TRUE FALSE Bacitracin Bacitracine Bacitracina Bacitracina Bacitracine Bacitracin Bacitracin
64 Benzathine benzylpenicillin FALSE TRUE TRUE FALSE Benzathin-Benzylpenicillin Benzylpenicillinebenzathine Bencilpenicilina benzatínica Benzatina benzilpenicillina Benzathine benzylpénicilline Benzatina benzatina benzilpenicilina Benzathinbenzylpenicillin
65 Benzathine phenoxymethylpenicillin FALSE TRUE TRUE FALSE Benzathin-Phenoxymethylpenicillin Fenoxymethylpenicillinebenzathine Fenoximetilpenicilina benzatínica Benzatina fenossimetilpenicillina Phénoxyméthylpénicilline benzathine Benzatina fenoximetilpenicilina Benzathinfenoxymethylpenicillin
66 Benzylpenicillin FALSE TRUE TRUE FALSE Benzylpenicillin Benzylpenicilline Bencilpenicilina Benzilpenicillina Benzylpénicilline Benzilpenicilina Benzylpenicillin
67 Calcium aminosalicylate FALSE TRUE TRUE FALSE Kalzium-Aminosalicylat Aminosalicylzuur Aminosalicilato de calcio Calcio aminosalicilato Aminosalicylate de calcium Aminosalicilato de cálcio Calciumaminosalicylat
68 Capreomycin FALSE TRUE TRUE FALSE Capreomycin Capreomycine Capreomicina Capreomicina Capréomycine Capreomicina Capreomycin
69 Carbenicillin FALSE TRUE TRUE FALSE Carbenicillin Carbenicilline Carbenicilina Carbenicillina Carbénicilline Carbenicilina Carbenicillin
70 Carindacillin FALSE TRUE TRUE FALSE Carindacillin Carindacilline Carindacilina Carindacillina Carindacilline Carindacillin Carindacillin
71 Caspofungin FALSE TRUE TRUE FALSE Caspofungin Caspofungine Caspofungina Caspofungin Caspofungine Caspofungin Caspofungin
72 Ce(f|ph)acetrile TRUE TRUE TRUE FALSE Cefacetril Cefacetril Cefacetrilo Cefacetrile Céphacétrile Cephacetrile Cephacetril
73 Ce(f|ph)alotin TRUE TRUE TRUE FALSE Cefalotin Cefalotine Cefalotina Cefalotina Céphalotine Cefalotina Cephalotin
74 Ce(f|ph)amandole TRUE TRUE TRUE FALSE Cefamandol Cefamandol Cefamandole Cephamandole Céphamandole Cephamandole Cephamandol
75 Ce(f|ph)apirin TRUE TRUE TRUE FALSE Cefapirin Cefapirine Cefapirina Cefapirina Céphapirine Cephapirin Cephapirin
76 Ce(f|ph)azedone TRUE TRUE TRUE FALSE Cefazedon Cefazedon Cefazedona Cefazedone Céphazédone Cephazedone Cephazedon
77 Ce(f|ph)azolin TRUE TRUE TRUE FALSE Cefazolin Cefazoline Cefazolina Cephazolin Céphazoline Cephazolin Cephazolin
78 Ce(f|ph)alothin TRUE TRUE TRUE FALSE Cefalothin Cefalotine Cefalotina Cefalotina Céphalothine Cephalothin Cephalothin
79 Ce(f|ph)alexin TRUE TRUE TRUE FALSE Cefalexin Cefalexine Cefalexina Cephalexin Céphalexine Cephalexin Cephalexin
80 Ce(f|ph)epime TRUE TRUE TRUE FALSE Cefepim Cefepim Cefepime Cephepime Céphépime Cephepime Cephepime
81 Ce(f|ph)ixime TRUE TRUE TRUE FALSE Cefixim Cefixim Cefixima Cephixime Céphixime Cephixime Cephixim
82 Ce(f|ph)menoxime TRUE TRUE TRUE FALSE Cefmenoxim Cefmenoxim Cefmenoxima Cephmenoxime Céphénoxime Cephmenoxime Cephmenoxim
83 Ce(f|ph)metazole TRUE TRUE TRUE FALSE Cefmetazol Cefmetazol Cefmetazol Cephmetazole Céphmétazole Cefmetazole Cephmetazol
84 Ce(f|ph)odizime TRUE TRUE TRUE FALSE Cefodizim Cefodizim Cefodizima Cefodixima Cephodizime Céphodizime Cephodizime Cephodizim
85 Ce(f|ph)onicid TRUE TRUE TRUE FALSE Cefonicid Cefonicide Cefonicid Cefonicida Cephonicid Céphonicide Cefonicid Cephonicid
86 Ce(f|ph)operazone TRUE TRUE TRUE FALSE Cefoperazon Cefoperazon Cefoperazona Cephoperazone Céphopérazone Cephoperazone Cephoperazon
87 Ce(f|ph)operazone/beta-lactamase inhibitor TRUE TRUE TRUE FALSE Cefoperazon/Beta-Lactamase-Hemmer Cefoperazon/enzymremmer Cefoperazona/inhib. de la betalactamasa Cefoperazona/inhib. de betalactamasas Cephoperazone/inib. d. beta-lattamasi Céphopérazone/inhib. de bêta-lactamase Cephoperazona/inibid. da beta-lactamase Cephoperazon/beta-lactamasehæmmer
88 Ce(f|ph)otaxime TRUE TRUE TRUE FALSE Cefotaxim Cefotaxim Cefotaxima Cephotaxime Céphotaxime Cephotaxime Cephotaxim
89 Ce(f|ph)oxitin TRUE TRUE TRUE FALSE Cefoxitin Cefoxitine Cefoxitina Cefossitina Céphoxitine Cephoxitin Cephoxitin
90 Ce(f|ph)pirome TRUE TRUE TRUE FALSE Cefpirom Cefpirom Cefpirome Cephpirome Cephpirome Céphpirome Cefpirome Cephpirom
91 Ce(f|ph)podoxime TRUE TRUE TRUE FALSE Cefpodoxim Cefpodoxim Cefpodoxima Cephpodoxime Céphpodoxime Cephpodoxime Cephpodoxim
92 Ce(f|ph)radine TRUE TRUE TRUE FALSE Cefradin Cefradine Cefradina Cefradina Céphradine Cephradine Cephradin
93 Ce(f|ph)sulodin TRUE TRUE TRUE FALSE Cefsulodin Cefsulodine Cefsulodina Cephsulodin Céphsulodine Cephsulodin Cephsulodin
94 Ce(f|ph)tazidime TRUE TRUE TRUE FALSE Ceftazidim Ceftazidim Ceftazidima Ceftazidima Céphtazidime Ceftazidima Cephtazidim
95 Ce(f|ph)tezole TRUE TRUE TRUE FALSE Ceftezol Ceftezol Ceftezol Cephtezole Céphtézole Ceftezole Cephtezol
96 Ce(f|ph)tizoxime TRUE TRUE TRUE FALSE Ceftizoxim Ceftizoxim Ceftizoxima Cephtizoxime Céphtizoxime Cephtizoxime Cephtizoxim
97 Ce(f|ph)triaxone TRUE TRUE TRUE FALSE Ceftriaxon Ceftriaxon Ceftriaxona Ceftriaxone Céphtriaxone Cefhtriaxone Cephtriaxon
98 Ce(f|ph)uroxime TRUE TRUE TRUE FALSE Cefuroxim Cefuroxim Cefuroxima Cefuroxima Céphuroxime Cephuroxime Cephuroxim
99 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
100 Chloramphenicol FALSE TRUE TRUE FALSE Chloramphenicol Chlooramfenicol Cloranfenicol Cloramfenicolo Chloramphénicol Cloranfenicol Kloramfenicol
101 Chlortetracycline FALSE TRUE TRUE FALSE Chlortetracyclin Chloortetracycline Clortetraciclina Clorotetraciclina Chlortétracycline Chlortetracycline Chlortetracyclin
102 Cinoxacin FALSE TRUE TRUE FALSE Cinoxacin Cinoxacine Cinoxacina Cinoxacina Cinoxacine Cinoxacin Cinoxacin
103 Ciprofloxacin FALSE TRUE TRUE FALSE Ciprofloxacin Ciprofloxacine Ciprofloxacina Ciprofloxacina Ciprofloxacine Ciprofloxacin Ciprofloxacin
104 Clarithromycin FALSE TRUE TRUE FALSE Clarithromycin Claritromycine Claritromicina Claritromicina Clarithromycine Claritromicina Clarithromycin
105 Clavulanic acid FALSE TRUE TRUE FALSE Clavulansäure Clavulaanzuur Ácido clavulánico Acido clavulanico Acide clavulanique Ácido clavulânico Clavulansyre
106 clavulanic acid FALSE TRUE TRUE FALSE Clavulansäure clavulaanzuur ácido clavulánico acido clavulanico acide clavulanique ácido clavulânico clavulansyre
107 Clindamycin FALSE TRUE TRUE FALSE Clindamycin Clindamycine Clindamicina Clindamicina Clindamycine Clindamicina Clindamycin
108 Clometocillin FALSE TRUE TRUE FALSE Clometocillin Clometocilline Clometocilina Clometocillina Clométocilline Clometocillin Clometocillin
109 Clotrimazole FALSE TRUE TRUE FALSE Clotrimazol Clotrimazol Clotrimazol Clotrimazolo Clotrimazole Clotrimazole Clotrimazol
110 Cloxacillin FALSE TRUE TRUE FALSE Cloxacillin Cloxacilline Cloxacilina Cloxacillina Cloxacilline Cloxacillin Cloxacillin
111 Colistin FALSE TRUE TRUE FALSE Colistin Colistine Colistina Colistina Colistine Colistin Colistin
112 Dapsone FALSE TRUE TRUE FALSE Dapson Dapson Dapsona Dapsone Dapsone Dapsone Dapson
113 Daptomycin FALSE TRUE TRUE FALSE Daptomycin Daptomycine Daptomicina Daptomicina Daptomycine Daptomicina Daptomycin
114 Dibekacin FALSE TRUE TRUE FALSE Dibekacin Dibekacine Dibekacina Dibekacin Dibekacine Dibekacin Dibekacin
115 Dicloxacillin FALSE TRUE TRUE FALSE Dicloxacillin Dicloxacilline Dicloxacilina Dicloxacillina Dicloxacilline Dicloxacilina Dicloxacillin
116 Dirithromycin FALSE TRUE TRUE FALSE Dirithromycin Diritromycine Diritromicina Diritromicina Dirithromycine Diritromicina Dirithromycin
117 Econazole FALSE TRUE TRUE FALSE Econazol Econazol Econazol Econazolo Econazole Econazole Econazol
118 Enoxacin FALSE TRUE TRUE FALSE Enoxacin Enoxacine Enoxacina Enoxacina Enoxacine Enoxacin Enoxacin
119 Epicillin FALSE TRUE TRUE FALSE Epicillin Epicilline Epicilina Epicillina Epicilline Epicilina Epicillin
120 Erythromycin FALSE TRUE TRUE FALSE Erythromycin Erytromycine Eritromicina Eritromicina Erythromycine Eritromicina Erythromycin
121 Ethambutol/isoniazid FALSE TRUE TRUE FALSE Ethambutol/Isoniazid Ethambutol/isoniazide Etambutol/isoniazida Etambutolo/isoniazide Ethambutol/isoniazide Ethambutol/isoniazid Ethambutol/isoniazid
122 Fleroxacin FALSE TRUE TRUE FALSE Fleroxacin Fleroxacine Fleroxacina Fleroxacina Fléroxacine Fleroxacina Fleroxacin
123 Flucloxacillin FALSE TRUE TRUE FALSE Flucloxacillin Flucloxacilline Flucloxacilina Flucloxacillina Flucloxacilline Flucloxacillin Flucloxacillin
124 Fluconazole FALSE TRUE TRUE FALSE Fluconazol Fluconazol Fluconazol Fluconazolo Fluconazole Fluconazole Fluconazol
125 Flucytosine FALSE TRUE TRUE FALSE Flucytosin Fluorocytosine Flucitosina Flucytosine Flucytosine Flucytosine Flucytosin
126 Flurithromycin FALSE TRUE TRUE FALSE Flurithromycin Fluritromycine Fluritromicina Fluritromicina Flurithromycine Fluritromicina Flurithromycin
127 Fosfomycin FALSE TRUE TRUE FALSE Fosfomycin Fosfomycine Fosfomicina Fosfomicina Fosfomycine Fosfomycin Fosfomycin
128 Fusidic acid FALSE TRUE TRUE FALSE Fusidinsäure Fusidinezuur Ácido fusídico Acido fusidico Acide fusidique Ácido fusídico Fusidinsyre
129 Gatifloxacin FALSE TRUE TRUE FALSE Gatifloxacin Gatifloxacine Gatifloxacina Gatifloxacina Gatifloxacine Gatifloxacin Gatifloxacin
130 Gemifloxacin FALSE TRUE TRUE FALSE Gemifloxacin Gemifloxacine Gemifloxacina Gemifloxacina Gemifloxacine Gemifloxacin Gemifloxacin
131 Gentamicin FALSE TRUE TRUE FALSE Gentamicin Gentamicine Gentamicina Gentamicina Gentamicine Gentamicina Gentamicin
132 Grepafloxacin FALSE TRUE TRUE FALSE Grepafloxacin Grepafloxacine Grepafloxacina Grepafloxacina Grepafloxacine Grepafloxacin Grepafloxacin
133 Hachimycin FALSE TRUE TRUE FALSE Hachimycin Hachimycine Hachimycin Hachimycin Hachimycine Hachimycin Hachimycin
134 Hetacillin FALSE TRUE TRUE FALSE Hetacillin Hetacilline Hetacilina Hetacillin Hétacilline Hetacillin Hetacillin
135 Imipenem/cilastatin FALSE TRUE TRUE FALSE Imipenem/Cilastatin Imipenem/enzymremmer Imipenem/cilastatina Imipenem/cilastatina Imipénème/cilastatine Imipenem/coteltelatina Imipenem/cilastatin
136 Inosine pranobex FALSE TRUE TRUE FALSE Inosin-Pranobex Inosiplex Inosina pranobex Inosina pranobex Inosine pranobex Pranobex inosine Inosin pranobex
137 Isepamicin FALSE TRUE TRUE FALSE Isepamicin Isepamicine Isepamicina Isepamicina Isepamicine Isepamicina Isepamicin
138 Isoconazole FALSE TRUE TRUE FALSE Isoconazol Isoconazol Isoconazol Isoconazolo Isoconazole Isoconazole Isoconazol
139 Isoniazid FALSE TRUE TRUE FALSE Isoniazid Isoniazide Isoniazida Isoniazide Isoniazide Isoniazid Isoniazid
140 Itraconazole FALSE TRUE TRUE FALSE Itraconazol Itraconazol Itraconazol Itraconazolo Itraconazole Itraconazole Itraconazol
141 Josamycin FALSE TRUE TRUE FALSE Josamycin Josamycine Josamicina Josamicina Josamycine Josamycin Josamycin
142 Kanamycin FALSE TRUE TRUE FALSE Kanamycin Kanamycine Kanamicina Kanamicina Kanamycine Kanamycin Kanamycin
143 Ketoconazole FALSE TRUE TRUE FALSE Ketoconazol Ketoconazol Ketoconazol Ketoconazolo Kétoconazole Ketoconazole Ketoconazol
144 Levofloxacin FALSE TRUE TRUE FALSE Levofloxacin Levofloxacine Levofloxacina Levofloxacina Lévofloxacine Levofloxacin Levofloxacin
145 Lincomycin FALSE TRUE TRUE FALSE Lincomycin Lincomycine Lincomicina Lincomicina Lincomycine Lincomycin Lincomycin
146 Lomefloxacin FALSE TRUE TRUE FALSE Lomefloxacin Lomefloxacine Lomefloxacina Lomefloxacina Loméfloxacine Lomefloxacin Lomefloxacin
147 Lysozyme FALSE TRUE TRUE FALSE Lysozym Lysozym Lisozima Lisozima Lysozyme Lysozyme Lysozym
148 Mandelic acid FALSE TRUE TRUE FALSE Mandelsäure Amandelzuur Ácido mandélico Acido mandelico Acide mandélique Ácido mandélico Mandelinsyre
149 Metampicillin FALSE TRUE TRUE FALSE Metampicillin Metampicilline Metampicilina Metampicillina Métampicilline Metampicilina Metampicillin
150 Meticillin FALSE TRUE TRUE FALSE Meticillin Meticilline Meticilina Meticillina Méticilline Meticillin Meticillin
151 Metisazone FALSE TRUE TRUE FALSE Metisazon Metisazon Metisazona Metisazone Métisazone Metisazone Metisazon
152 Metronidazole FALSE TRUE TRUE FALSE Metronidazol Metronidazol Metronidazol Metronidazolo Métronidazole Metronidazol Metronidazol
153 Mezlocillin FALSE TRUE TRUE FALSE Mezlocillin Mezlocilline Mezlocilina Mezlocillina Mezlocilline Mezlocillin Mezlocillin
154 Micafungin FALSE TRUE TRUE FALSE Micafungin Micafungine Micafungina Micafungin Micafungine Micafungin Micafungin
155 Miconazole FALSE TRUE TRUE FALSE Miconazol Miconazol Miconazol Miconazolo Miconazole Miconazole Miconazol
156 Midecamycin FALSE TRUE TRUE FALSE Midecamycin Midecamycine Midecamicina Midecamicina Midecamycine Midecamycin Midecamycin
157 Miocamycin FALSE TRUE TRUE FALSE Miocamycin Miocamycine Miocamycin Miocamicina Miocamycine Miocamicina Miocamycin
158 Moxifloxacin FALSE TRUE TRUE FALSE Moxifloxacin Moxifloxacine Moxifloxacina Moxifloxacin Moxifloxacine Moxifloxacina Moxifloxacin
159 Mupirocin FALSE TRUE TRUE FALSE Mupirocin Mupirocine Mupirocina Mupirocina Mupirocine Mupirocina Mupirocin
160 Nalidixic acid FALSE TRUE TRUE FALSE Nalidixinsäure Nalidixinezuur Ácido nalidíxico Acido nalidixico Acide nalidixique Ácido nalidíxico Nalidixinsyre
161 Neomycin FALSE TRUE TRUE FALSE Neomycin Neomycine Neomicina Neomicina Néomycine Neomicina Neomycin
162 Netilmicin FALSE TRUE TRUE FALSE Netilmicin Netilmicine Netilmicina Netilmicin Netilmicine Netilmicin Netilmicin
163 Nitrofurantoin FALSE TRUE TRUE FALSE Nitrofurantoin Nitrofurantoine Nitrofurantoína Nitrofurantoina Nitrofurantoïne Nitrofurantoína Nitrofurantoin
164 Norfloxacin FALSE TRUE TRUE FALSE Norfloxacin Norfloxacine Norfloxacina Norfloxacina Norfloxacine Norfloxacin Norfloxacin
165 Novobiocin FALSE TRUE TRUE FALSE Novobiocin Novobiocine Novobiocina Novobiocin Novobiocine Novobiocin Novobiocin
166 Nystatin FALSE TRUE TRUE FALSE Nystatin Nystatine Nistatina Nystatin Nystatine Nystatin Nystatin
167 Ofloxacin FALSE TRUE TRUE FALSE Ofloxacin Ofloxacine Ofloxacina Ofloxacin Ofloxacine Ofloxacin Ofloxacin
168 Oleandomycin FALSE TRUE TRUE FALSE Oleandomycin Oleandomycine Oleandomicina Oleandomicina Oleandomycine Oleandomicina Oleandomycin
169 Ornidazole FALSE TRUE TRUE FALSE Ornidazol Ornidazol Ornidazol Ornidazolo Ornidazole Ornidazole Ornidazol
170 Oxacillin FALSE TRUE TRUE FALSE Oxacillin Oxacilline Oxacilina Oxacillina Oxacilline Oxacillin Oxacillin
171 Oxolinic acid FALSE TRUE TRUE FALSE Oxolinsäure Oxolinezuur Ácido oxolínico Acido ossolinico Acide oxolinique Ácido oxolínico Oxolinsyre
172 Oxytetracycline FALSE TRUE TRUE FALSE Oxytetracyclin Oxytetracycline Oxitetraciclina Ossitetraciclina Oxytétracycline Oxitetraciclina Oxytetracyclin
173 Pazufloxacin FALSE TRUE TRUE FALSE Pazufloxacin Pazufloxacine Pazufloxacina Pazufloxacin Pazufloxacine Pazufloxacin Pazufloxacin
174 Pefloxacin FALSE TRUE TRUE FALSE Pefloxacin Pefloxacine Pefloxacina Pefloxacina Péfloxacine Pefloxacin Pefloxacin
175 Penamecillin FALSE TRUE TRUE FALSE Penamecillin Penamecilline Penamecilina Penamecillina Pénamécilline Penamecilina Penamecillin
176 Penicillin FALSE TRUE TRUE FALSE Penicillin Penicilline Penicilina Penicillina Pénicilline Penicilina Penicillin
177 Pheneticillin FALSE TRUE TRUE FALSE Pheneticillin Feneticilline Feneticilina Feneticillina Phénéticilline Pheneticillin Pheneticillin
178 Phenoxymethylpenicillin FALSE TRUE TRUE FALSE Phenoxymethylpenicillin Fenoxymethylpenicilline Fenoximetilpenicilina Fenossimetilpenicillina Phénoxyméthylpénicilline Fenoximetilpenicilina Phenoxymethylpenicillin
179 Pipemidic acid FALSE TRUE TRUE FALSE Pipemidinsäure Pipemidinezuur Ácido pipemídico Acido pipemidico Acide pipémidique Ácido pipemídico Pipemidinsyre
180 Piperacillin FALSE TRUE TRUE FALSE Piperacillin Piperacilline Piperacilina Piperacillina Pipéracilline Piperacilina Piperacillin
181 Piperacillin/beta-lactamase inhibitor FALSE TRUE TRUE FALSE Piperacillin/Beta-Lactamase-Hemmer Piperacilline/enzymremmer Piperacilina/inhib. de la betalactamasa Piperacilina/inhib. de la beta-lactamasa Piperacillina/inib. d. beta-lattamasi Pipéracilline/inhib. de bêta-lactamase Piperacilina/inibid. da beta-lactamase Piperacillin/beta-lactamasehæmmer
182 Piromidic acid FALSE TRUE TRUE FALSE Piromidinsäure Piromidinezuur Ácido piromídico Acido piromidico Acide piromidique Ácido piromídico Piromidinsyre
183 Pivampicillin FALSE TRUE TRUE FALSE Pivampicillin Pivampicilline Pivampicilina Pivampicillina Pivampicilline Pivampicilina Pivampicillin
184 Polymyxin B FALSE TRUE TRUE FALSE Polymyxin B Polymyxine B Polimixina B Polimixina B Polymyxine B Polimixina B Polymyxin B
185 Posaconazole FALSE TRUE TRUE FALSE Posaconazol Posaconazol Posaconazol Posaconazolo Posaconazole Posaconazole Posaconazol
186 Pristinamycin FALSE TRUE TRUE FALSE Pristinamycin Pristinamycine Pristinamicina Pristinamicina Pristinamycine Pristinamicina Pristinamycin
187 Procaine benzylpenicillin FALSE TRUE TRUE FALSE Procain-Benzylpenicillin Benzylpenicillineprocaine Bencilpenicilina procaína Procaina benzilpenicillina Procaïne benzylpénicilline Procaína benzilpenicilina Prokainbenzylpenicillin
188 Propicillin FALSE TRUE TRUE FALSE Propicillin Propicilline Propicilina Propicillina Propicilline Propicilina Propicillin
189 Prulifloxacin FALSE TRUE TRUE FALSE Prulifloxacin Prulifloxacine Prulifloxacina Prulifloxacina Prulifloxacine Prulifloxacina Prulifloxacin
190 Quinupristin/dalfopristin FALSE TRUE TRUE FALSE Quinupristin/Dalfopristin Quinupristine/dalfopristine Quinupristina/dalfopristina Quinupristina/dalfopristina Quinupristine/dalfopristine Quinupristin/dalfopristin Quinupristin/dalfopristin
191 Ribostamycin FALSE TRUE TRUE FALSE Ribostamycin Ribostamycine Ribostamicina Ribostamicina Ribostamycine Ribostamicina Ribostamycin
192 Rifabutin FALSE TRUE TRUE FALSE Rifabutin Rifabutine Rifabutina Rifabutina Rifabutine Rifabutin Rifabutin
193 Rifampicin FALSE TRUE TRUE FALSE Rifampicin Rifampicine Rifampicina Rifampicina Rifampicine Rifampicina Rifampicin
194 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
195 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
196 Rifampicin/isoniazid FALSE TRUE TRUE FALSE Rifampicin/Isoniazid Rifampicine/isoniazide Rifampicina/isoniazida Rifampicina/isoniazide Rifampicine/isoniazide Rifampicina/isoniazida Rifampicin/isoniazid
197 Rifamycin FALSE TRUE TRUE FALSE Rifamycin Rifamycine Rifamicina Rifamicina Rifamycine Rifamycin Rifamycin
198 Rifaximin FALSE TRUE TRUE FALSE Rifaximin Rifaximine Rifaximina Rifaximina Rifaximine Rifaximin Rifaximin
199 Rokitamycin FALSE TRUE TRUE FALSE Rokitamycin Rokitamycine Rokitamicina Rokitamicina Rokitamycine Rokitamycin Rokitamycin
200 Rosoxacin FALSE TRUE TRUE FALSE Rosoxacin Rosoxacine Rosoxacina Rosoxacina Rosoxacine Rosoxacina Rosoxacin
201 Roxithromycin FALSE TRUE TRUE FALSE Roxithromycin Roxitromycine Roxitromicina Roxitromicina Roxithromycine Roxitromicina Roxithromycin
202 Rufloxacin FALSE TRUE TRUE FALSE Rufloxacin Rufloxacine Rufloxacina Rufloxacina Rufloxacine Rufloxacin Rufloxacin
203 Sisomicin FALSE TRUE TRUE FALSE Sisomicin Sisomicine Sisomicina Sisomicina Sisomicine Sisomicina Sisomicin
204 Sodium aminosalicylate FALSE TRUE TRUE FALSE Natrium-Aminosalicylat Aminosalicylzuur Aminosalicilato de sodio Sodio aminosalicilato Aminosalicylate de sodium Aminosalicilato de sódio Natriumaminosalicylat
205 Sparfloxacin FALSE TRUE TRUE FALSE Sparfloxacin Sparfloxacine Esparfloxacina Sparfloxacina Sparfloxacine Sparfloxacin Sparfloxacin
206 Spectinomycin FALSE TRUE TRUE FALSE Spectinomycin Spectinomycine Espectinomicina Spectinomycin Spectinomycine Spectinomycin Spectinomycin
207 Spiramycin FALSE TRUE TRUE FALSE Spiramycin Spiramycine Espiramicina Spiramicina Spiramycine Spiramycin Spiramycin
208 Spiramycin/metronidazole FALSE TRUE TRUE FALSE Spiramycin/Metronidazol Spiramycine/metronidazol Espiramicina/metronidazol Spiramicina/metronidazolo Spiramycine/métronidazole Spiramycin/metronidazol Spiramycin/metronidazol
209 Staphylococcus immunoglobulin FALSE TRUE TRUE FALSE Staphylococcus-Immunoglobulin Stafylokokkenimmunoglobuline Inmunoglobulina estafilocócica Immunoglobulina per stafilococco Immunoglobuline staphylococcique Imunoglobulina de Staphylococcus Stafylokok-immunglobulin
210 Streptoduocin FALSE TRUE TRUE FALSE Streptoduocin Streptoduocine Estreptoduocina Streptoduocin Streptoduocine Estreptoduocina Streptoduocin
211 Streptomycin FALSE TRUE TRUE FALSE Streptomycin Streptomycine Estreptomicina Streptomicina Streptomycine Streptomycin Streptomycin
212 Streptomycin/isoniazid FALSE TRUE TRUE FALSE Streptomycin/Isoniazid Streptomycine/isoniazide Estreptomicina/isoniazida Streptomicina/isoniazide Streptomycine/isoniazide Streptomicina/isoniazida Streptomycin/isoniazid
213 Sulbenicillin FALSE TRUE TRUE FALSE Sulbenicillin Sulbenicilline Sulbenicilina Sulbenicillina Sulbenicilline Sulbenicilina Sulbenicillin
214 Sulfadiazine/tetroxoprim FALSE TRUE TRUE FALSE Sulfadiazin/Tetroxoprim Sulfadiazine/tetroxoprim Sulfadiazina/tetroxoprima Sulfadiazina/tetroxoprim Sulfadiazina/tetroxoprim Sulfadiazine/tetroxoprime Sulfadiazina/tetroxoprim Sulfadiazin/tetroxoprim
215 Sulfadiazine/trimethoprim FALSE TRUE TRUE FALSE Sulfadiazin/Trimethoprim Sulfadiazine/trimethoprim Sulfadiazina/trimetoprima Sulfadiazina/trimetoprim Sulfadiazine/triméthoprime Sulfadiazina/trimethoprim Sulfadiazin/trimethoprim
216 Sulfadimidine/trimethoprim FALSE TRUE TRUE FALSE Sulfadimidin/Trimethoprim Sulfadimidine/trimethoprim Sulfadimidina/trimetoprima Sulfadimidina/trimetoprim Sulfadimidine/triméthoprime Sulfadimidina/trimethoprim Sulfadimidin/trimethoprim
217 Sulfafurazole FALSE TRUE TRUE FALSE Sulfafurazol Sulfafurazol Sulfafurazol Sulfafurazolo Sulfafurazole Sulfafurazole Sulfafurazol
218 Sulfaisodimidine FALSE TRUE TRUE FALSE Sulfaisodimidin Sulfisomidine Sulfaisodimidina Sulfaisodimidina Sulfaisodimidine Sulfaisodimidina Sulfaisodimidin
219 Sulfalene FALSE TRUE TRUE FALSE Sulfalene Sulfaleen Sulfaleno Sulfalene Sulfalène Sulfaleno Sulfalen
220 Sulfamazone FALSE TRUE TRUE FALSE Sulfamazon Sulfamazon Sulfamazona Sulfamazone Sulfamazone Sulfamazona Sulfamazon
221 Sulfamerazine/trimethoprim FALSE TRUE TRUE FALSE Sulfamerazin/Trimethoprim Sulfamerazine/trimethoprim Sulfamerazina/trimetoprima Sulfamerazina/trimetoprim Sulfamérazine/triméthoprime Sulfamerazina/trimethoprim Sulfamerazin/trimethoprim
222 Sulfamethizole FALSE TRUE TRUE FALSE Sulfamethizol Sulfamethizol Sulfametozol Sulfamethizolo Sulfaméthizole Sulfametizole Sulfamethizol
223 Sulfamethoxazole FALSE TRUE TRUE FALSE Sulfamethoxazol Sulfamethoxazol Sulfametoxazol Sulfametossazolo Sulfaméthoxazole Sulfamethoxazole Sulfamethoxazol
224 Sulfamethoxazole/trimethoprim FALSE TRUE TRUE FALSE Sulfamethoxazol/Trimethoprim Sulfamethoxazol/trimethoprim Sulfametoxazol/trimetoprima Sulfametossazolo/trimetoprim Sulfaméthoxazole/triméthoprime Sulfametoxazol/trimethoprim Sulfamethoxazol/trimethoprim
225 Sulfametoxydiazine FALSE TRUE TRUE FALSE Sulfametoxydiazin Sulfamethoxydiazine Sulfametoxidiazina Sulfametoxydiazine Sulfamétoxydiazine Sulfametoxidiazina Sulfametoxydiazin
226 Sulfametrole/trimethoprim FALSE TRUE TRUE FALSE Sulfametrole/Trimethoprim Sulfametrol/trimethoprim Sulfametrole/trimethoprim Sulfametrol/trimetoprima Sulfametrole/trimetoprim Sulfamétrole/triméthoprime Sulfametrole/trimethoprim Sulfametrol/trimethoprim
227 Sulfamoxole FALSE TRUE TRUE FALSE Sulfamoxol Sulfamoxol Sulfamoxole Sulfamoxolo Sulfamoxole Sulfamoxole Sulfamoxol
228 Sulfamoxole/trimethoprim FALSE TRUE TRUE FALSE Sulfamoxol/Trimethoprim Sulfamoxol/trimethoprim Sulfamoxol/trimetoprima Sulfamoxolo/trimetoprim Sulfamoxole/triméthoprime Sulfamoxole/trimethoprim Sulfamoxol/trimethoprim
229 Sulfaperin FALSE TRUE TRUE FALSE Sulfaperin Sulfaperine Sulfaproxeno Sulfametoxazol Sulfaperin Sulfapérine Sulfaperin Sulfaperin
230 Sulfaphenazole FALSE TRUE TRUE FALSE Sulfaphenazol Sulfafenazol Sulfafenazol Sulfafenazolo Sulfaphénazole Sulfafenazol Sulfaphenazol
231 Sulfathiazole FALSE TRUE TRUE FALSE Sulfathiazol Sulfathiazol Sulfatiazol Sulfathiazole Sulfathiazole Sulfatazol Sulfathiazol
232 Sulfathiourea FALSE TRUE TRUE FALSE Sulfathioharnstoff Sulfathioureum Sulfathiourea Sulfathiourea Sulfathiourée Sulfathiourea Sulfathiourea
233 Sultamicillin FALSE TRUE TRUE FALSE Sultamicillin Sultamicilline Sultamicilina Sultamicillina Sultamicilline Sultamicillin Sultamicillin
234 Talampicillin FALSE TRUE TRUE FALSE Talampicillin Talampicilline Talampicilina Talampicillina Talampicilline Talampicilina Talampicillin
235 Teicoplanin FALSE TRUE TRUE FALSE Teicoplanin Teicoplanine Teicoplanina Teicoplanina Teicoplanine Teicoplanin Teicoplanin
236 Telithromycin FALSE TRUE TRUE FALSE Telithromycin Telitromycine Telitromicina Telitromicina Télithromycine Telitromicina Telithromycin
237 Temafloxacin FALSE TRUE TRUE FALSE Temafloxacin Temafloxacine Temafloxacina Temafloxacina Temafloxacine Temafloxacin Temafloxacin
238 Temocillin FALSE TRUE TRUE FALSE Temocillin Temocilline Temocilina Temocillina Temocillin Temocillin Temocillin
239 Tenofovir disoproxil FALSE TRUE TRUE FALSE Tenofovir Disoproxil Tenofovir Tenofovir disoproxil Tenofovir disoproxil Tenofovir disoproxil Tenofovir disoproxil Tenofovir disoproxil
240 Terizidone FALSE TRUE TRUE FALSE Terizidon Terizidon Terizidona Terizidone Terizidone Terizidone Terizidon
241 Thiamphenicol FALSE TRUE TRUE FALSE Thiamphenicol Thiamfenicol Tiamfenicol Tiamfenicolo Thiamphénicol Tiamfenicol Thiamphenicol
242 Thioacetazone/isoniazid FALSE TRUE TRUE FALSE Thioacetazon/Isoniazid Thioacetazon/isoniazide Tioacetazona/isoniazida Tioacetazone/isoniazide Thioacétazone/isoniazide Thioacetazone/isoniazid Thioacetazon/isoniazid
243 Ticarcillin FALSE TRUE TRUE FALSE Ticarcillin Ticarcilline Ticarcilina Ticarcillina Ticarcilline Ticarcilina Ticarcillin
244 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
245 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
246 Tinidazole FALSE TRUE TRUE FALSE Tinidazol Tinidazol Tinidazol Tinidazolo Tinidazole Tinidazole Tinidazol
247 Tobramycin FALSE TRUE TRUE FALSE Tobramycin Tobramycine Tobramicina Tobramicina Tobramycine Tobramycin Tobramycin
248 Trimethoprim/sulfamethoxazole FALSE TRUE TRUE FALSE Trimethoprim/Sulfamethoxazol Cotrimoxazol Trimetoprima/sulfametoxazol Trimetoprim/sulfametossazolo Triméthoprime/sulfaméthoxazole Trimethoprim/sulfametoxazol Trimethoprim/sulfamethoxazol
249 Troleandomycin FALSE TRUE TRUE FALSE Troleandomycin Troleandomycine Troleandomicina Troleandomicina Troleandomycine Troleandomicina Troleandomycin
250 Trovafloxacin FALSE TRUE TRUE FALSE Trovafloxacin Trovafloxacine Trovafloxacina Trovafloxacin Trovafloxacine Trovafloxacin Trovafloxacin
251 Vancomycin FALSE TRUE TRUE FALSE Vancomycin Vancomycine Vancomicina Vancomicina Vancomycine Vancomycin Vancomycin
252 Voriconazole FALSE TRUE TRUE FALSE Voriconazol Voriconazol Voriconazol Voriconazolo Voriconazole Voriconazol Voriconazol
253 Aminoglycosides FALSE TRUE TRUE FALSE Aminoglykoside Aminoglycosiden Aminoglucósidos Aminoglicosidi Aminoglycosides Aminoglycosides Aminoglykosider
254 Amphenicols FALSE TRUE TRUE FALSE Amphenicole Amfenicolen Anfenicoles Amphenicols Amphénicols Anfenicóis Amphenicoler
255 Antifungals/antimycotics FALSE TRUE TRUE FALSE Antimykotika/Antimykotika Antifungica/antimycotica Antifúngicos/antimicóticos Antifungini/antimicotici Antifongiques/antimycotiques Antifúngicos/antimicóticos Antimykotika/antimykotika
256 Antimycobacterials FALSE TRUE TRUE FALSE Antimykobakterielle Mittel Antimycobacteriele middelen Antimicrobianos Antimicobatterici Antimycobactériens Antimycobacterials Antimycobakterier
257 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
258 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.)
259 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.)
260 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.)
261 Cephalosporins (4th gen.) FALSE TRUE TRUE FALSE Cephalosporine (4. Gen.) Cefalosporines (4e gen.) Cefalosporinas (4º gen.) Cefalosporinas (4ª gen.) Cefalosporine (4° gen.) Céphalosporines (4ème génération) Cefalosporinas (4.ª gen.) Cefalosporiner (4. gen.)
262 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.)
263 Cephalosporins (unclassified gen.) FALSE TRUE TRUE FALSE Cephalosporine (unklassifiziert) Cefalosporines (ongeclassificeerd) Cefalosporinas (no clasificado) Cefalosporinas (gen. no clasificado) Cefalosporine (gen. non classificato) Céphalosporines (genre non classifié) Cefalosporinas (não classificado gen.) Cefalosporiner (uklassificeret gen.)
264 Cephalosporins FALSE TRUE TRUE FALSE Cephalosporine Cefalosporines Cefalosporinas Cefalosporine Céphalosporines Cefalosporinas Cefalosporiner
265 Glycopeptides FALSE TRUE TRUE FALSE Glykopeptide Glycopeptiden Glicopéptidos Glicopeptidi Glycopeptides Glycopeptides Glykopeptider
266 Macrolides/lincosamides FALSE TRUE TRUE FALSE Makrolide/Linkosamide Macroliden/lincosamiden Macrólidos/lincosamidas Macrolidi/lincosamidi Macrolides/lincosamides Macrolides/lincosamidas Makrolider/lincosamider
267 Other antibacterials FALSE TRUE TRUE FALSE Andere Antibiotika Overige antibiotica Otros antibacterianos Altri antibatterici Autres antibactériens Outros antibacterianos Andre antibakterielle stoffer
268 Polymyxins FALSE TRUE TRUE FALSE Polymyxine Polymyxines Polimixinas Polimixine Polymyxines Polimixinas Polymyxiner
269 Quinolones FALSE TRUE TRUE FALSE Quinolone Quinolonen Quinolonas Chinoloni Quinolones Quinolones Kinoloner

4
docs/LICENSE-text.html
View File

@ -92,7 +92,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="index.html">AMR (for R)</a> <a class="navbar-link" href="index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9033</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -503,7 +503,7 @@ END OF TERMS AND CONDITIONS
<footer> <footer>
<div class="copyright"> <div class="copyright">
<p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link">Corinna Glasner</a>.</p></p> <p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, Christian F. Luz.</p></p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

586
docs/articles/AMR.html
View File

@ -44,7 +44,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9030</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -185,13 +185,13 @@
</header><script src="AMR_files/header-attrs-2.9/header-attrs.js"></script><div class="row"> </header><script src="AMR_files/header-attrs-2.11/header-attrs.js"></script><div class="row">
<div class="col-md-9 contents"> <div class="col-md-9 contents">
<div class="page-header toc-ignore"> <div class="page-header toc-ignore">
<h1 data-toc-skip>How to conduct AMR data analysis</h1> <h1 data-toc-skip>How to conduct AMR data analysis</h1>
<h4 data-toc-skip class="author">Matthijs S. Berends</h4> <h4 data-toc-skip class="author">Matthijs S. Berends</h4>
<h4 data-toc-skip class="date">29 August 2021</h4> <h4 data-toc-skip class="date">29 September 2021</h4>
<small class="dont-index">Source: <a href="https://github.com/msberends/AMR/blob/master/vignettes/AMR.Rmd" class="external-link"><code>vignettes/AMR.Rmd</code></a></small> <small class="dont-index">Source: <a href="https://github.com/msberends/AMR/blob/master/vignettes/AMR.Rmd" class="external-link"><code>vignettes/AMR.Rmd</code></a></small>
<div class="hidden name"><code>AMR.Rmd</code></div> <div class="hidden name"><code>AMR.Rmd</code></div>
@ -200,7 +200,7 @@
<p><strong>Note:</strong> values on this page will change with every website update since they are based on randomly created values and the page was written in <a href="https://rmarkdown.rstudio.com/" class="external-link">R Markdown</a>. However, the methodology remains unchanged. This page was generated on 29 August 2021.</p> <p><strong>Note:</strong> values on this page will change with every website update since they are based on randomly created values and the page was written in <a href="https://rmarkdown.rstudio.com/" class="external-link">R Markdown</a>. However, the methodology remains unchanged. This page was generated on 29 September 2021.</p>
<div id="introduction" class="section level1"> <div id="introduction" class="section level1">
<h1 class="hasAnchor"> <h1 class="hasAnchor">
<a href="#introduction" class="anchor" aria-hidden="true"></a>Introduction</h1> <a href="#introduction" class="anchor" aria-hidden="true"></a>Introduction</h1>
@ -231,21 +231,21 @@
</tr></thead> </tr></thead>
<tbody> <tbody>
<tr class="odd"> <tr class="odd">
<td align="center">2021-08-29</td> <td align="center">2021-09-29</td>
<td align="center">abcd</td> <td align="center">abcd</td>
<td align="center">Escherichia coli</td> <td align="center">Escherichia coli</td>
<td align="center">S</td> <td align="center">S</td>
<td align="center">S</td> <td align="center">S</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="center">2021-08-29</td> <td align="center">2021-09-29</td>
<td align="center">abcd</td> <td align="center">abcd</td>
<td align="center">Escherichia coli</td> <td align="center">Escherichia coli</td>
<td align="center">S</td> <td align="center">S</td>
<td align="center">R</td> <td align="center">R</td>
</tr> </tr>
<tr class="odd"> <tr class="odd">
<td align="center">2021-08-29</td> <td align="center">2021-09-29</td>
<td align="center">efgh</td> <td align="center">efgh</td>
<td align="center">Escherichia coli</td> <td align="center">Escherichia coli</td>
<td align="center">R</td> <td align="center">R</td>
@ -342,8 +342,30 @@
</tr></thead> </tr></thead>
<tbody> <tbody>
<tr class="odd"> <tr class="odd">
<td align="center">2012-06-29</td> <td align="center">2017-08-27</td>
<td align="center">E6</td> <td align="center">L5</td>
<td align="center">Hospital B</td>
<td align="center">Escherichia coli</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">M</td>
</tr>
<tr class="even">
<td align="center">2017-02-15</td>
<td align="center">L4</td>
<td align="center">Hospital C</td>
<td align="center">Escherichia coli</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">R</td>
<td align="center">S</td>
<td align="center">M</td>
</tr>
<tr class="odd">
<td align="center">2010-01-01</td>
<td align="center">H4</td>
<td align="center">Hospital A</td> <td align="center">Hospital A</td>
<td align="center">Escherichia coli</td> <td align="center">Escherichia coli</td>
<td align="center">R</td> <td align="center">R</td>
@ -353,57 +375,35 @@
<td align="center">M</td> <td align="center">M</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="center">2014-08-25</td> <td align="center">2014-12-09</td>
<td align="center">D8</td> <td align="center">C5</td>
<td align="center">Hospital D</td>
<td align="center">Klebsiella pneumoniae</td>
<td align="center">R</td>
<td align="center">I</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">M</td>
</tr>
<tr class="odd">
<td align="center">2017-01-14</td>
<td align="center">V1</td>
<td align="center">Hospital C</td>
<td align="center">Streptococcus pneumoniae</td>
<td align="center">I</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">F</td>
</tr>
<tr class="even">
<td align="center">2010-10-15</td>
<td align="center">X2</td>
<td align="center">Hospital B</td> <td align="center">Hospital B</td>
<td align="center">Staphylococcus aureus</td> <td align="center">Escherichia coli</td>
<td align="center">S</td> <td align="center">S</td>
<td align="center">S</td> <td align="center">S</td>
<td align="center">S</td> <td align="center">S</td>
<td align="center">R</td>
<td align="center">F</td>
</tr>
<tr class="odd">
<td align="center">2011-04-05</td>
<td align="center">H6</td>
<td align="center">Hospital A</td>
<td align="center">Streptococcus pneumoniae</td>
<td align="center">S</td>
<td align="center">I</td>
<td align="center">S</td>
<td align="center">S</td> <td align="center">S</td>
<td align="center">M</td> <td align="center">M</td>
</tr> </tr>
<tr class="even"> <tr class="odd">
<td align="center">2012-01-10</td> <td align="center">2010-02-19</td>
<td align="center">Y7</td> <td align="center">W1</td>
<td align="center">Hospital D</td> <td align="center">Hospital D</td>
<td align="center">Streptococcus pneumoniae</td> <td align="center">Escherichia coli</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">F</td>
</tr>
<tr class="even">
<td align="center">2010-11-16</td>
<td align="center">X9</td>
<td align="center">Hospital A</td>
<td align="center">Escherichia coli</td>
<td align="center">R</td> <td align="center">R</td>
<td align="center">S</td> <td align="center">S</td>
<td align="center">R</td> <td align="center">S</td>
<td align="center">S</td> <td align="center">S</td>
<td align="center">F</td> <td align="center">F</td>
</tr> </tr>
@ -439,16 +439,16 @@ Longest: 1</p>
<tr class="odd"> <tr class="odd">
<td align="left">1</td> <td align="left">1</td>
<td align="left">M</td> <td align="left">M</td>
<td align="right">10,326</td> <td align="right">10,412</td>
<td align="right">51.63%</td> <td align="right">52.06%</td>
<td align="right">10,326</td> <td align="right">10,412</td>
<td align="right">51.63%</td> <td align="right">52.06%</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="left">2</td> <td align="left">2</td>
<td align="left">F</td> <td align="left">F</td>
<td align="right">9,674</td> <td align="right">9,588</td>
<td align="right">48.37%</td> <td align="right">47.94%</td>
<td align="right">20,000</td> <td align="right">20,000</td>
<td align="right">100.00%</td> <td align="right">100.00%</td>
</tr> </tr>
@ -465,7 +465,6 @@ Longest: 1</p>
<span class="co"># [1] FALSE FALSE FALSE FALSE TRUE TRUE TRUE TRUE FALSE</span> <span class="co"># [1] FALSE FALSE FALSE FALSE TRUE TRUE TRUE TRUE FALSE</span>
<span class="fu"><a href="https://rdrr.io/r/base/colnames.html" class="external-link">colnames</a></span><span class="op">(</span><span class="va">data</span><span class="op">)</span><span class="op">[</span><span class="fu"><a href="../reference/as.rsi.html">is.rsi.eligible</a></span><span class="op">(</span><span class="va">data</span><span class="op">)</span><span class="op">]</span> <span class="fu"><a href="https://rdrr.io/r/base/colnames.html" class="external-link">colnames</a></span><span class="op">(</span><span class="va">data</span><span class="op">)</span><span class="op">[</span><span class="fu"><a href="../reference/as.rsi.html">is.rsi.eligible</a></span><span class="op">(</span><span class="va">data</span><span class="op">)</span><span class="op">]</span>
<span class="co"># [1] "AMX" "AMC" "CIP" "GEN"</span> <span class="co"># [1] "AMX" "AMC" "CIP" "GEN"</span>
<span class="va">data</span> <span class="op">&lt;-</span> <span class="va">data</span> <span class="op">%&gt;%</span> <span class="va">data</span> <span class="op">&lt;-</span> <span class="va">data</span> <span class="op">%&gt;%</span>
<span class="fu"><a href="https://dplyr.tidyverse.org/reference/mutate.html" class="external-link">mutate</a></span><span class="op">(</span><span class="fu"><a href="https://dplyr.tidyverse.org/reference/across.html" class="external-link">across</a></span><span class="op">(</span><span class="fu">where</span><span class="op">(</span><span class="va">is.rsi.eligible</span><span class="op">)</span>, <span class="va">as.rsi</span><span class="op">)</span><span class="op">)</span></code></pre></div> <span class="fu"><a href="https://dplyr.tidyverse.org/reference/mutate.html" class="external-link">mutate</a></span><span class="op">(</span><span class="fu"><a href="https://dplyr.tidyverse.org/reference/across.html" class="external-link">across</a></span><span class="op">(</span><span class="fu">where</span><span class="op">(</span><span class="va">is.rsi.eligible</span><span class="op">)</span>, <span class="va">as.rsi</span><span class="op">)</span><span class="op">)</span></code></pre></div>
<p>Finally, we will apply <a href="https://www.eucast.org/expert_rules_and_intrinsic_resistance/" class="external-link">EUCAST rules</a> on our antimicrobial results. In Europe, most medical microbiological laboratories already apply these rules. Our package features their latest insights on intrinsic resistance and exceptional phenotypes. Moreover, the <code><a href="../reference/eucast_rules.html">eucast_rules()</a></code> function can also apply additional rules, like forcing <help title="ATC: J01CA01">ampicillin</help> = R when <help title="ATC: J01CR02">amoxicillin/clavulanic acid</help> = R.</p> <p>Finally, we will apply <a href="https://www.eucast.org/expert_rules_and_intrinsic_resistance/" class="external-link">EUCAST rules</a> on our antimicrobial results. In Europe, most medical microbiological laboratories already apply these rules. Our package features their latest insights on intrinsic resistance and exceptional phenotypes. Moreover, the <code><a href="../reference/eucast_rules.html">eucast_rules()</a></code> function can also apply additional rules, like forcing <help title="ATC: J01CA01">ampicillin</help> = R when <help title="ATC: J01CR02">amoxicillin/clavulanic acid</help> = R.</p>
@ -496,16 +495,15 @@ Longest: 1</p>
<div class="sourceCode" id="cb14"><pre class="downlit sourceCode r"> <div class="sourceCode" id="cb14"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span class="va">data</span> <span class="op">&lt;-</span> <span class="va">data</span> <span class="op">%&gt;%</span> <code class="sourceCode R"><span class="va">data</span> <span class="op">&lt;-</span> <span class="va">data</span> <span class="op">%&gt;%</span>
<span class="fu"><a href="https://dplyr.tidyverse.org/reference/mutate.html" class="external-link">mutate</a></span><span class="op">(</span>first <span class="op">=</span> <span class="fu"><a href="../reference/first_isolate.html">first_isolate</a></span><span class="op">(</span>info <span class="op">=</span> <span class="cn">TRUE</span><span class="op">)</span><span class="op">)</span> <span class="fu"><a href="https://dplyr.tidyverse.org/reference/mutate.html" class="external-link">mutate</a></span><span class="op">(</span>first <span class="op">=</span> <span class="fu"><a href="../reference/first_isolate.html">first_isolate</a></span><span class="op">(</span>info <span class="op">=</span> <span class="cn">TRUE</span><span class="op">)</span><span class="op">)</span>
<span class="co"># Determining first isolates using the 'phenotype-based' method and an</span> <span class="co"># Determining first isolates using an episode length of 365 days</span>
<span class="co"># episode length of 365 days</span>
<span class="co"># ℹ Using column 'bacteria' as input for `col_mo`.</span> <span class="co"># ℹ Using column 'bacteria' as input for `col_mo`.</span>
<span class="co"># ℹ Using column 'date' as input for `col_date`.</span> <span class="co"># ℹ Using column 'date' as input for `col_date`.</span>
<span class="co"># ℹ Using column 'patient_id' as input for `col_patient_id`.</span> <span class="co"># ℹ Using column 'patient_id' as input for `col_patient_id`.</span>
<span class="co"># Basing inclusion on all antimicrobial results, using a points threshold of</span> <span class="co"># Basing inclusion on all antimicrobial results, using a points threshold of</span>
<span class="co"># 2</span> <span class="co"># 2</span>
<span class="co"># =&gt; Found 10,571 first weighted isolates (phenotype-based, 52.9% of total</span> <span class="co"># =&gt; Found 10,617 'phenotype-based' first isolates (53.1% of total where a</span>
<span class="co"># where a microbial ID was available)</span></code></pre></div> <span class="co"># microbial ID was available)</span></code></pre></div>
<p>So only 52.9% is suitable for resistance analysis! We can now filter on it with the <code><a href="https://dplyr.tidyverse.org/reference/filter.html" class="external-link">filter()</a></code> function, also from the <code>dplyr</code> package:</p> <p>So only 53.1% is suitable for resistance analysis! We can now filter on it with the <code><a href="https://dplyr.tidyverse.org/reference/filter.html" class="external-link">filter()</a></code> function, also from the <code>dplyr</code> package:</p>
<div class="sourceCode" id="cb15"><pre class="downlit sourceCode r"> <div class="sourceCode" id="cb15"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span class="va">data_1st</span> <span class="op">&lt;-</span> <span class="va">data</span> <span class="op">%&gt;%</span> <code class="sourceCode R"><span class="va">data_1st</span> <span class="op">&lt;-</span> <span class="va">data</span> <span class="op">%&gt;%</span>
<span class="fu"><a href="https://dplyr.tidyverse.org/reference/filter.html" class="external-link">filter</a></span><span class="op">(</span><span class="va">first</span> <span class="op">==</span> <span class="cn">TRUE</span><span class="op">)</span></code></pre></div> <span class="fu"><a href="https://dplyr.tidyverse.org/reference/filter.html" class="external-link">filter</a></span><span class="op">(</span><span class="va">first</span> <span class="op">==</span> <span class="cn">TRUE</span><span class="op">)</span></code></pre></div>
@ -513,10 +511,10 @@ Longest: 1</p>
<div class="sourceCode" id="cb16"><pre class="downlit sourceCode r"> <div class="sourceCode" id="cb16"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span class="va">data_1st</span> <span class="op">&lt;-</span> <span class="va">data</span> <span class="op">%&gt;%</span> <code class="sourceCode R"><span class="va">data_1st</span> <span class="op">&lt;-</span> <span class="va">data</span> <span class="op">%&gt;%</span>
<span class="fu"><a href="../reference/first_isolate.html">filter_first_isolate</a></span><span class="op">(</span><span class="op">)</span></code></pre></div> <span class="fu"><a href="../reference/first_isolate.html">filter_first_isolate</a></span><span class="op">(</span><span class="op">)</span></code></pre></div>
<p>So we end up with 10,571 isolates for analysis. Now our data looks like:</p> <p>So we end up with 10,617 isolates for analysis. Now our data looks like:</p>
<div class="sourceCode" id="cb17"><pre class="downlit sourceCode r"> <div class="sourceCode" id="cb17"><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">data_1st</span><span class="op">)</span></code></pre></div> <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">data_1st</span><span class="op">)</span></code></pre></div>
<table style="width:100%;" class="table"> <table class="table">
<colgroup> <colgroup>
<col width="2%"> <col width="2%">
<col width="9%"> <col width="9%">
@ -530,7 +528,7 @@ Longest: 1</p>
<col width="6%"> <col width="6%">
<col width="11%"> <col width="11%">
<col width="12%"> <col width="12%">
<col width="9%"> <col width="7%">
<col width="5%"> <col width="5%">
</colgroup> </colgroup>
<thead><tr class="header"> <thead><tr class="header">
@ -551,9 +549,9 @@ Longest: 1</p>
</tr></thead> </tr></thead>
<tbody> <tbody>
<tr class="odd"> <tr class="odd">
<td align="left">1</td> <td align="left">3</td>
<td align="center">2012-06-29</td> <td align="center">2010-01-01</td>
<td align="center">E6</td> <td align="center">H4</td>
<td align="center">Hospital A</td> <td align="center">Hospital A</td>
<td align="center">B_ESCHR_COLI</td> <td align="center">B_ESCHR_COLI</td>
<td align="center">R</td> <td align="center">R</td>
@ -567,83 +565,83 @@ Longest: 1</p>
<td align="center">TRUE</td> <td align="center">TRUE</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="left">2</td> <td align="left">4</td>
<td align="center">2014-08-25</td> <td align="center">2014-12-09</td>
<td align="center">D8</td> <td align="center">C5</td>
<td align="center">Hospital B</td>
<td align="center">B_ESCHR_COLI</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">M</td>
<td align="center">Gram-negative</td>
<td align="center">Escherichia</td>
<td align="center">coli</td>
<td align="center">TRUE</td>
</tr>
<tr class="odd">
<td align="left">6</td>
<td align="center">2010-11-16</td>
<td align="center">X9</td>
<td align="center">Hospital A</td>
<td align="center">B_ESCHR_COLI</td>
<td align="center">R</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">F</td>
<td align="center">Gram-negative</td>
<td align="center">Escherichia</td>
<td align="center">coli</td>
<td align="center">TRUE</td>
</tr>
<tr class="even">
<td align="left">8</td>
<td align="center">2011-07-04</td>
<td align="center">T1</td>
<td align="center">Hospital D</td> <td align="center">Hospital D</td>
<td align="center">B_KLBSL_PNMN</td> <td align="center">B_ESCHR_COLI</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">R</td>
<td align="center">S</td>
<td align="center">F</td>
<td align="center">Gram-negative</td>
<td align="center">Escherichia</td>
<td align="center">coli</td>
<td align="center">TRUE</td>
</tr>
<tr class="odd">
<td align="left">10</td>
<td align="center">2012-05-19</td>
<td align="center">M7</td>
<td align="center">Hospital D</td>
<td align="center">B_STPHY_AURS</td>
<td align="center">R</td>
<td align="center">R</td>
<td align="center">R</td>
<td align="center">S</td>
<td align="center">M</td>
<td align="center">Gram-positive</td>
<td align="center">Staphylococcus</td>
<td align="center">aureus</td>
<td align="center">TRUE</td>
</tr>
<tr class="even">
<td align="left">14</td>
<td align="center">2016-05-14</td>
<td align="center">C2</td>
<td align="center">Hospital D</td>
<td align="center">B_ESCHR_COLI</td>
<td align="center">R</td> <td align="center">R</td>
<td align="center">I</td> <td align="center">I</td>
<td align="center">S</td> <td align="center">R</td>
<td align="center">S</td> <td align="center">R</td>
<td align="center">M</td> <td align="center">M</td>
<td align="center">Gram-negative</td> <td align="center">Gram-negative</td>
<td align="center">Klebsiella</td> <td align="center">Escherichia</td>
<td align="center">pneumoniae</td> <td align="center">coli</td>
<td align="center">TRUE</td>
</tr>
<tr class="odd">
<td align="left">4</td>
<td align="center">2010-10-15</td>
<td align="center">X2</td>
<td align="center">Hospital B</td>
<td align="center">B_STPHY_AURS</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">R</td>
<td align="center">F</td>
<td align="center">Gram-positive</td>
<td align="center">Staphylococcus</td>
<td align="center">aureus</td>
<td align="center">TRUE</td>
</tr>
<tr class="even">
<td align="left">6</td>
<td align="center">2012-01-10</td>
<td align="center">Y7</td>
<td align="center">Hospital D</td>
<td align="center">B_STRPT_PNMN</td>
<td align="center">R</td>
<td align="center">R</td>
<td align="center">R</td>
<td align="center">R</td>
<td align="center">F</td>
<td align="center">Gram-positive</td>
<td align="center">Streptococcus</td>
<td align="center">pneumoniae</td>
<td align="center">TRUE</td>
</tr>
<tr class="odd">
<td align="left">8</td>
<td align="center">2016-02-07</td>
<td align="center">V2</td>
<td align="center">Hospital A</td>
<td align="center">B_KLBSL_PNMN</td>
<td align="center">R</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">F</td>
<td align="center">Gram-negative</td>
<td align="center">Klebsiella</td>
<td align="center">pneumoniae</td>
<td align="center">TRUE</td>
</tr>
<tr class="even">
<td align="left">10</td>
<td align="center">2016-11-08</td>
<td align="center">D4</td>
<td align="center">Hospital A</td>
<td align="center">B_STPHY_AURS</td>
<td align="center">R</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">M</td>
<td align="center">Gram-positive</td>
<td align="center">Staphylococcus</td>
<td align="center">aureus</td>
<td align="center">TRUE</td> <td align="center">TRUE</td>
</tr> </tr>
</tbody> </tbody>
@ -667,8 +665,8 @@ Longest: 1</p>
<code class="sourceCode R"><span class="va">data_1st</span> <span class="op">%&gt;%</span> <span class="fu"><a href="https://rdrr.io/pkg/cleaner/man/freq.html" class="external-link">freq</a></span><span class="op">(</span><span class="va">genus</span>, <span class="va">species</span><span class="op">)</span></code></pre></div> <code class="sourceCode R"><span class="va">data_1st</span> <span class="op">%&gt;%</span> <span class="fu"><a href="https://rdrr.io/pkg/cleaner/man/freq.html" class="external-link">freq</a></span><span class="op">(</span><span class="va">genus</span>, <span class="va">species</span><span class="op">)</span></code></pre></div>
<p><strong>Frequency table</strong></p> <p><strong>Frequency table</strong></p>
<p>Class: character<br> <p>Class: character<br>
Length: 10,571<br> Length: 10,617<br>
Available: 10,571 (100.0%, NA: 0 = 0.0%)<br> Available: 10,617 (100.0%, NA: 0 = 0.0%)<br>
Unique: 4</p> Unique: 4</p>
<p>Shortest: 16<br> <p>Shortest: 16<br>
Longest: 24</p> Longest: 24</p>
@ -685,33 +683,33 @@ Longest: 24</p>
<tr class="odd"> <tr class="odd">
<td align="left">1</td> <td align="left">1</td>
<td align="left">Escherichia coli</td> <td align="left">Escherichia coli</td>
<td align="right">4,507</td> <td align="right">4,569</td>
<td align="right">42.64%</td> <td align="right">43.03%</td>
<td align="right">4,507</td> <td align="right">4,569</td>
<td align="right">42.64%</td> <td align="right">43.03%</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="left">2</td> <td align="left">2</td>
<td align="left">Staphylococcus aureus</td> <td align="left">Staphylococcus aureus</td>
<td align="right">2,799</td> <td align="right">2,718</td>
<td align="right">26.48%</td> <td align="right">25.60%</td>
<td align="right">7,306</td> <td align="right">7,287</td>
<td align="right">69.11%</td> <td align="right">68.64%</td>
</tr> </tr>
<tr class="odd"> <tr class="odd">
<td align="left">3</td> <td align="left">3</td>
<td align="left">Streptococcus pneumoniae</td> <td align="left">Streptococcus pneumoniae</td>
<td align="right">2,087</td> <td align="right">2,158</td>
<td align="right">19.74%</td> <td align="right">20.33%</td>
<td align="right">9,393</td> <td align="right">9,445</td>
<td align="right">88.86%</td> <td align="right">88.96%</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="left">4</td> <td align="left">4</td>
<td align="left">Klebsiella pneumoniae</td> <td align="left">Klebsiella pneumoniae</td>
<td align="right">1,178</td> <td align="right">1,172</td>
<td align="right">11.14%</td> <td align="right">11.04%</td>
<td align="right">10,571</td> <td align="right">10,617</td>
<td align="right">100.00%</td> <td align="right">100.00%</td>
</tr> </tr>
</tbody> </tbody>
@ -758,90 +756,90 @@ Longest: 24</p>
</tr></thead> </tr></thead>
<tbody> <tbody>
<tr class="odd"> <tr class="odd">
<td align="center">2010-10-15</td> <td align="center">2016-05-14</td>
<td align="center">X2</td> <td align="center">C2</td>
<td align="center">Hospital B</td> <td align="center">Hospital D</td>
<td align="center">B_STPHY_AURS</td> <td align="center">B_ESCHR_COLI</td>
<td align="center">R</td>
<td align="center">I</td>
<td align="center">R</td>
<td align="center">R</td>
<td align="center">M</td>
<td align="center">Gram-negative</td>
<td align="center">Escherichia</td>
<td align="center">coli</td>
<td align="center">TRUE</td>
</tr>
<tr class="even">
<td align="center">2013-08-08</td>
<td align="center">C10</td>
<td align="center">Hospital C</td>
<td align="center">B_STRPT_PNMN</td>
<td align="center">S</td> <td align="center">S</td>
<td align="center">S</td> <td align="center">S</td>
<td align="center">S</td> <td align="center">S</td>
<td align="center">R</td> <td align="center">R</td>
<td align="center">M</td>
<td align="center">Gram-positive</td>
<td align="center">Streptococcus</td>
<td align="center">pneumoniae</td>
<td align="center">TRUE</td>
</tr>
<tr class="odd">
<td align="center">2017-08-12</td>
<td align="center">H8</td>
<td align="center">Hospital D</td>
<td align="center">B_STRPT_PNMN</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">R</td>
<td align="center">M</td>
<td align="center">Gram-positive</td>
<td align="center">Streptococcus</td>
<td align="center">pneumoniae</td>
<td align="center">TRUE</td>
</tr>
<tr class="even">
<td align="center">2012-09-19</td>
<td align="center">S7</td>
<td align="center">Hospital C</td>
<td align="center">B_STPHY_AURS</td>
<td align="center">R</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">R</td>
<td align="center">F</td> <td align="center">F</td>
<td align="center">Gram-positive</td> <td align="center">Gram-positive</td>
<td align="center">Staphylococcus</td> <td align="center">Staphylococcus</td>
<td align="center">aureus</td> <td align="center">aureus</td>
<td align="center">TRUE</td> <td align="center">TRUE</td>
</tr> </tr>
<tr class="even">
<td align="center">2012-01-10</td>
<td align="center">Y7</td>
<td align="center">Hospital D</td>
<td align="center">B_STRPT_PNMN</td>
<td align="center">R</td>
<td align="center">R</td>
<td align="center">R</td>
<td align="center">R</td>
<td align="center">F</td>
<td align="center">Gram-positive</td>
<td align="center">Streptococcus</td>
<td align="center">pneumoniae</td>
<td align="center">TRUE</td>
</tr>
<tr class="odd"> <tr class="odd">
<td align="center">2014-02-02</td> <td align="center">2016-07-27</td>
<td align="center">K7</td> <td align="center">I10</td>
<td align="center">Hospital A</td> <td align="center">Hospital C</td>
<td align="center">B_STPHY_AURS</td> <td align="center">B_STRPT_PNMN</td>
<td align="center">S</td>
<td align="center">S</td> <td align="center">S</td>
<td align="center">S</td> <td align="center">S</td>
<td align="center">R</td> <td align="center">R</td>
<td align="center">R</td>
<td align="center">M</td> <td align="center">M</td>
<td align="center">Gram-positive</td> <td align="center">Gram-positive</td>
<td align="center">Staphylococcus</td>
<td align="center">aureus</td>
<td align="center">TRUE</td>
</tr>
<tr class="even">
<td align="center">2011-08-05</td>
<td align="center">V3</td>
<td align="center">Hospital B</td>
<td align="center">B_STRPT_PNMN</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">R</td>
<td align="center">F</td>
<td align="center">Gram-positive</td>
<td align="center">Streptococcus</td>
<td align="center">pneumoniae</td>
<td align="center">TRUE</td>
</tr>
<tr class="odd">
<td align="center">2014-06-16</td>
<td align="center">Z8</td>
<td align="center">Hospital B</td>
<td align="center">B_STRPT_PNMN</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">S</td>
<td align="center">R</td>
<td align="center">F</td>
<td align="center">Gram-positive</td>
<td align="center">Streptococcus</td> <td align="center">Streptococcus</td>
<td align="center">pneumoniae</td> <td align="center">pneumoniae</td>
<td align="center">TRUE</td> <td align="center">TRUE</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="center">2017-08-23</td> <td align="center">2013-11-25</td>
<td align="center">J10</td> <td align="center">P4</td>
<td align="center">Hospital D</td> <td align="center">Hospital D</td>
<td align="center">B_STRPT_PNMN</td> <td align="center">B_STRPT_PNMN</td>
<td align="center">R</td> <td align="center">S</td>
<td align="center">R</td> <td align="center">S</td>
<td align="center">S</td> <td align="center">S</td>
<td align="center">R</td> <td align="center">R</td>
<td align="center">M</td> <td align="center">F</td>
<td align="center">Gram-positive</td> <td align="center">Gram-positive</td>
<td align="center">Streptococcus</td> <td align="center">Streptococcus</td>
<td align="center">pneumoniae</td> <td align="center">pneumoniae</td>
@ -868,50 +866,50 @@ Longest: 24</p>
<tr class="odd"> <tr class="odd">
<td align="center">E. coli</td> <td align="center">E. coli</td>
<td align="center">AMX</td> <td align="center">AMX</td>
<td align="center">2196</td> <td align="center">2159</td>
<td align="center">119</td> <td align="center">142</td>
<td align="center">2192</td> <td align="center">2268</td>
<td align="center">4507</td> <td align="center">4569</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="center">E. coli</td> <td align="center">E. coli</td>
<td align="center">AMC</td> <td align="center">AMC</td>
<td align="center">3378</td> <td align="center">3349</td>
<td align="center">151</td> <td align="center">169</td>
<td align="center">978</td> <td align="center">1051</td>
<td align="center">4507</td> <td align="center">4569</td>
</tr> </tr>
<tr class="odd"> <tr class="odd">
<td align="center">E. coli</td> <td align="center">E. coli</td>
<td align="center">CIP</td> <td align="center">CIP</td>
<td align="center">3282</td> <td align="center">3375</td>
<td align="center">0</td> <td align="center">0</td>
<td align="center">1225</td> <td align="center">1194</td>
<td align="center">4507</td> <td align="center">4569</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="center">E. coli</td> <td align="center">E. coli</td>
<td align="center">GEN</td> <td align="center">GEN</td>
<td align="center">3929</td> <td align="center">3985</td>
<td align="center">0</td> <td align="center">0</td>
<td align="center">578</td> <td align="center">584</td>
<td align="center">4507</td> <td align="center">4569</td>
</tr> </tr>
<tr class="odd"> <tr class="odd">
<td align="center">K. pneumoniae</td> <td align="center">K. pneumoniae</td>
<td align="center">AMX</td> <td align="center">AMX</td>
<td align="center">0</td> <td align="center">0</td>
<td align="center">0</td> <td align="center">0</td>
<td align="center">1178</td> <td align="center">1172</td>
<td align="center">1178</td> <td align="center">1172</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="center">K. pneumoniae</td> <td align="center">K. pneumoniae</td>
<td align="center">AMC</td> <td align="center">AMC</td>
<td align="center">930</td> <td align="center">930</td>
<td align="center">45</td> <td align="center">35</td>
<td align="center">203</td> <td align="center">207</td>
<td align="center">1178</td> <td align="center">1172</td>
</tr> </tr>
</tbody> </tbody>
</table> </table>
@ -934,34 +932,34 @@ Longest: 24</p>
<tr class="odd"> <tr class="odd">
<td align="center">E. coli</td> <td align="center">E. coli</td>
<td align="center">GEN</td> <td align="center">GEN</td>
<td align="center">3929</td> <td align="center">3985</td>
<td align="center">0</td> <td align="center">0</td>
<td align="center">578</td> <td align="center">584</td>
<td align="center">4507</td> <td align="center">4569</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="center">K. pneumoniae</td> <td align="center">K. pneumoniae</td>
<td align="center">GEN</td> <td align="center">GEN</td>
<td align="center">1052</td> <td align="center">1073</td>
<td align="center">0</td> <td align="center">0</td>
<td align="center">126</td> <td align="center">99</td>
<td align="center">1178</td> <td align="center">1172</td>
</tr> </tr>
<tr class="odd"> <tr class="odd">
<td align="center">S. aureus</td> <td align="center">S. aureus</td>
<td align="center">GEN</td> <td align="center">GEN</td>
<td align="center">2473</td> <td align="center">2409</td>
<td align="center">0</td> <td align="center">0</td>
<td align="center">326</td> <td align="center">309</td>
<td align="center">2799</td> <td align="center">2718</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="center">S. pneumoniae</td> <td align="center">S. pneumoniae</td>
<td align="center">GEN</td> <td align="center">GEN</td>
<td align="center">0</td> <td align="center">0</td>
<td align="center">0</td> <td align="center">0</td>
<td align="center">2087</td> <td align="center">2158</td>
<td align="center">2087</td> <td align="center">2158</td>
</tr> </tr>
</tbody> </tbody>
</table> </table>
@ -975,7 +973,7 @@ Longest: 24</p>
<p>As per the EUCAST guideline of 2019, we calculate resistance as the proportion of R (<code><a href="../reference/proportion.html">proportion_R()</a></code>, equal to <code><a href="../reference/proportion.html">resistance()</a></code>) and susceptibility as the proportion of S and I (<code><a href="../reference/proportion.html">proportion_SI()</a></code>, equal to <code><a href="../reference/proportion.html">susceptibility()</a></code>). These functions can be used on their own:</p> <p>As per the EUCAST guideline of 2019, we calculate resistance as the proportion of R (<code><a href="../reference/proportion.html">proportion_R()</a></code>, equal to <code><a href="../reference/proportion.html">resistance()</a></code>) and susceptibility as the proportion of S and I (<code><a href="../reference/proportion.html">proportion_SI()</a></code>, equal to <code><a href="../reference/proportion.html">susceptibility()</a></code>). These functions can be used on their own:</p>
<div class="sourceCode" id="cb26"><pre class="downlit sourceCode r"> <div class="sourceCode" id="cb26"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span class="va">data_1st</span> <span class="op">%&gt;%</span> <span class="fu"><a href="../reference/proportion.html">resistance</a></span><span class="op">(</span><span class="va">AMX</span><span class="op">)</span> <code class="sourceCode R"><span class="va">data_1st</span> <span class="op">%&gt;%</span> <span class="fu"><a href="../reference/proportion.html">resistance</a></span><span class="op">(</span><span class="va">AMX</span><span class="op">)</span>
<span class="co"># [1] 0.5403462</span></code></pre></div> <span class="co"># [1] 0.5429029</span></code></pre></div>
<p>Or can be used in conjunction with <code><a href="https://dplyr.tidyverse.org/reference/group_by.html" class="external-link">group_by()</a></code> and <code><a href="https://dplyr.tidyverse.org/reference/summarise.html" class="external-link">summarise()</a></code>, both from the <code>dplyr</code> package:</p> <p>Or can be used in conjunction with <code><a href="https://dplyr.tidyverse.org/reference/group_by.html" class="external-link">group_by()</a></code> and <code><a href="https://dplyr.tidyverse.org/reference/summarise.html" class="external-link">summarise()</a></code>, both from the <code>dplyr</code> package:</p>
<div class="sourceCode" id="cb27"><pre class="downlit sourceCode r"> <div class="sourceCode" id="cb27"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span class="va">data_1st</span> <span class="op">%&gt;%</span> <code class="sourceCode R"><span class="va">data_1st</span> <span class="op">%&gt;%</span>
@ -989,19 +987,19 @@ Longest: 24</p>
<tbody> <tbody>
<tr class="odd"> <tr class="odd">
<td align="center">Hospital A</td> <td align="center">Hospital A</td>
<td align="center">0.5487147</td> <td align="center">0.5478773</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="center">Hospital B</td> <td align="center">Hospital B</td>
<td align="center">0.5436519</td> <td align="center">0.5516767</td>
</tr> </tr>
<tr class="odd"> <tr class="odd">
<td align="center">Hospital C</td> <td align="center">Hospital C</td>
<td align="center">0.5257549</td> <td align="center">0.5306768</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="center">Hospital D</td> <td align="center">Hospital D</td>
<td align="center">0.5338095</td> <td align="center">0.5297098</td>
</tr> </tr>
</tbody> </tbody>
</table> </table>
@ -1020,23 +1018,23 @@ Longest: 24</p>
<tbody> <tbody>
<tr class="odd"> <tr class="odd">
<td align="center">Hospital A</td> <td align="center">Hospital A</td>
<td align="center">0.5487147</td> <td align="center">0.5478773</td>
<td align="center">3151</td> <td align="center">3227</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="center">Hospital B</td> <td align="center">Hospital B</td>
<td align="center">0.5436519</td> <td align="center">0.5516767</td>
<td align="center">3631</td> <td align="center">3638</td>
</tr> </tr>
<tr class="odd"> <tr class="odd">
<td align="center">Hospital C</td> <td align="center">Hospital C</td>
<td align="center">0.5257549</td> <td align="center">0.5306768</td>
<td align="center">1689</td> <td align="center">1581</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="center">Hospital D</td> <td align="center">Hospital D</td>
<td align="center">0.5338095</td> <td align="center">0.5297098</td>
<td align="center">2100</td> <td align="center">2171</td>
</tr> </tr>
</tbody> </tbody>
</table> </table>
@ -1057,27 +1055,27 @@ Longest: 24</p>
<tbody> <tbody>
<tr class="odd"> <tr class="odd">
<td align="center">Escherichia</td> <td align="center">Escherichia</td>
<td align="center">0.7830042</td> <td align="center">0.7699715</td>
<td align="center">0.8717550</td> <td align="center">0.8721821</td>
<td align="center">0.9764810</td> <td align="center">0.9748304</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="center">Klebsiella</td> <td align="center">Klebsiella</td>
<td align="center">0.8276740</td> <td align="center">0.8233788</td>
<td align="center">0.8930390</td> <td align="center">0.9155290</td>
<td align="center">0.9787776</td> <td align="center">0.9872014</td>
</tr> </tr>
<tr class="odd"> <tr class="odd">
<td align="center">Staphylococcus</td> <td align="center">Staphylococcus</td>
<td align="center">0.7874241</td> <td align="center">0.7969095</td>
<td align="center">0.8835298</td> <td align="center">0.8863135</td>
<td align="center">0.9828510</td> <td align="center">0.9790287</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="center">Streptococcus</td> <td align="center">Streptococcus</td>
<td align="center">0.5318639</td> <td align="center">0.5338276</td>
<td align="center">0.0000000</td> <td align="center">0.0000000</td>
<td align="center">0.5318639</td> <td align="center">0.5338276</td>
</tr> </tr>
</tbody> </tbody>
</table> </table>
@ -1102,23 +1100,23 @@ Longest: 24</p>
<tbody> <tbody>
<tr class="odd"> <tr class="odd">
<td align="left">Hospital A</td> <td align="left">Hospital A</td>
<td align="right">54.9%</td> <td align="right">54.8%</td>
<td align="right">25.8%</td> <td align="right">26.7%</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="left">Hospital B</td> <td align="left">Hospital B</td>
<td align="right">54.4%</td> <td align="right">55.2%</td>
<td align="right">27.8%</td> <td align="right">26.9%</td>
</tr> </tr>
<tr class="odd"> <tr class="odd">
<td align="left">Hospital C</td> <td align="left">Hospital C</td>
<td align="right">52.6%</td> <td align="right">53.1%</td>
<td align="right">25.0%</td> <td align="right">26.9%</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="left">Hospital D</td> <td align="left">Hospital D</td>
<td align="right">53.4%</td> <td align="right">53.0%</td>
<td align="right">24.3%</td> <td align="right">25.4%</td>
</tr> </tr>
</tbody> </tbody>
</table> </table>
@ -1202,16 +1200,18 @@ Longest: 24</p>
<code class="sourceCode R"><span class="va">mic_values</span> <span class="op">&lt;-</span> <span class="fu"><a href="../reference/random.html">random_mic</a></span><span class="op">(</span>size <span class="op">=</span> <span class="fl">100</span><span class="op">)</span> <code class="sourceCode R"><span class="va">mic_values</span> <span class="op">&lt;-</span> <span class="fu"><a href="../reference/random.html">random_mic</a></span><span class="op">(</span>size <span class="op">=</span> <span class="fl">100</span><span class="op">)</span>
<span class="va">mic_values</span> <span class="va">mic_values</span>
<span class="co"># Class &lt;mic&gt;</span> <span class="co"># Class &lt;mic&gt;</span>
<span class="co"># [1] 1 128 0.01 0.25 0.01 16 0.001 0.125 0.25 0.01 </span> <span class="co"># [1] 0.005 0.125 32 0.0625 0.5 0.125 16 0.25 0.025 </span>
<span class="co"># [11] 0.005 16 0.0625 64 &gt;=256 0.5 0.01 16 0.5 0.0625</span> <span class="co"># [10] &lt;=0.001 &lt;=0.001 0.0625 0.01 1 2 32 0.01 8 </span>
<span class="co"># [21] 0.001 0.5 0.0625 4 2 8 0.5 0.0625 0.125 128 </span> <span class="co"># [19] 0.005 32 0.005 32 128 0.125 0.125 2 &lt;=0.001</span>
<span class="co"># [31] 0.002 0.25 2 8 0.125 0.0625 0.125 16 128 0.002 </span> <span class="co"># [28] 4 8 0.005 0.002 0.5 0.002 0.5 64 0.125 </span>
<span class="co"># [41] 1 0.005 2 32 0.01 0.0625 &gt;=256 64 16 0.005 </span> <span class="co"># [37] 0.01 0.002 0.0625 128 0.5 1 0.125 0.0625 0.002 </span>
<span class="co"># [51] 2 0.001 &gt;=256 32 64 &gt;=256 128 0.01 0.005 0.001 </span> <span class="co"># [46] 32 0.025 0.005 8 0.002 &lt;=0.001 8 1 16 </span>
<span class="co"># [61] 0.01 0.125 2 0.125 &gt;=256 32 64 0.01 2 0.25 </span> <span class="co"># [55] &lt;=0.001 0.25 0.125 0.025 4 8 0.0625 16 4 </span>
<span class="co"># [71] 0.01 64 0.5 128 0.001 64 128 0.002 &gt;=256 64 </span> <span class="co"># [64] 64 &lt;=0.001 128 0.125 0.5 4 32 &lt;=0.001 128 </span>
<span class="co"># [81] 0.01 8 0.5 4 16 0.025 0.025 0.001 0.125 0.025 </span> <span class="co"># [73] 16 64 16 0.125 4 2 0.002 0.025 8 </span>
<span class="co"># [91] 2 64 64 128 32 128 0.001 32 2 0.005</span></code></pre></div> <span class="co"># [82] 4 2 0.01 4 0.125 &lt;=0.001 0.002 0.01 0.5 </span>
<span class="co"># [91] 32 128 0.01 1 0.125 4 0.002 0.25 0.25 </span>
<span class="co"># [100] 16</span></code></pre></div>
<div class="sourceCode" id="cb37"><pre class="downlit sourceCode r"> <div class="sourceCode" id="cb37"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span class="co"># base R:</span> <code class="sourceCode R"><span class="co"># base R:</span>
<span class="fu"><a href="../reference/plot.html">plot</a></span><span class="op">(</span><span class="va">mic_values</span><span class="op">)</span></code></pre></div> <span class="fu"><a href="../reference/plot.html">plot</a></span><span class="op">(</span><span class="va">mic_values</span><span class="op">)</span></code></pre></div>
@ -1240,10 +1240,10 @@ Longest: 24</p>
<span class="co"># to review it.</span> <span class="co"># to review it.</span>
<span class="va">disk_values</span> <span class="va">disk_values</span>
<span class="co"># Class &lt;disk&gt;</span> <span class="co"># Class &lt;disk&gt;</span>
<span class="co"># [1] 30 29 25 23 27 18 23 21 31 26 17 30 18 31 30 25 22 19 18 26 31 19 21 25 29</span> <span class="co"># [1] 26 27 19 22 20 17 23 26 26 17 21 21 22 18 19 25 18 20 17 20 20 22 17 31 24</span>
<span class="co"># [26] 22 26 30 20 20 18 19 18 29 22 17 27 21 24 18 17 23 27 18 19 31 18 29 30 25</span> <span class="co"># [26] 28 22 20 31 18 19 26 25 19 22 19 26 26 24 18 18 19 31 25 31 21 28 23 22 21</span>
<span class="co"># [51] 27 23 21 20 31 19 19 25 25 23 23 19 17 25 21 30 20 31 26 23 29 27 30 29 24</span> <span class="co"># [51] 22 18 22 18 29 25 29 29 29 24 22 19 23 23 23 22 17 24 17 26 23 25 30 26 17</span>
<span class="co"># [76] 20 23 23 27 20 24 19 28 24 31 29 26 23 20 29 23 18 17 27 21 28 28 17 23 17</span></code></pre></div> <span class="co"># [76] 17 20 31 17 30 25 18 18 22 29 25 24 29 27 26 30 29 18 21 18 24 25 26 31 25</span></code></pre></div>
<div class="sourceCode" id="cb43"><pre class="downlit sourceCode r"> <div class="sourceCode" id="cb43"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span class="co"># base R:</span> <code class="sourceCode R"><span class="co"># base R:</span>
<span class="fu"><a href="../reference/plot.html">plot</a></span><span class="op">(</span><span class="va">disk_values</span>, mo <span class="op">=</span> <span class="st">"E. coli"</span>, ab <span class="op">=</span> <span class="st">"cipro"</span><span class="op">)</span></code></pre></div> <span class="fu"><a href="../reference/plot.html">plot</a></span><span class="op">(</span><span class="va">disk_values</span>, mo <span class="op">=</span> <span class="st">"E. coli"</span>, ab <span class="op">=</span> <span class="st">"cipro"</span><span class="op">)</span></code></pre></div>
@ -1312,7 +1312,7 @@ Longest: 24</p>
<footer><div class="copyright"> <footer><div class="copyright">
<p></p> <p></p>
<p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link external-link">Corinna Glasner</a>.</p> <p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link external-link">Matthijs S. Berends</a>, Christian F. Luz.</p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

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@ -0,0 +1,12 @@
// Pandoc 2.9 adds attributes on both header and div. We remove the former (to
// be compatible with the behavior of Pandoc < 2.8).
document.addEventListener('DOMContentLoaded', function(e) {
var hs = document.querySelectorAll("div.section[class*='level'] > :first-child");
var i, h, a;
for (i = 0; i < hs.length; i++) {
h = hs[i];
if (!/^h[1-6]$/i.test(h.tagName)) continue; // it should be a header h1-h6
a = h.attributes;
while (a.length > 0) h.removeAttribute(a[0].name);
}
});

62
docs/articles/MDR.html
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@ -44,7 +44,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9030</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -185,7 +185,7 @@
</header><script src="MDR_files/header-attrs-2.9/header-attrs.js"></script><div class="row"> </header><script src="MDR_files/header-attrs-2.11/header-attrs.js"></script><div class="row">
<div class="col-md-9 contents"> <div class="col-md-9 contents">
<div class="page-header toc-ignore"> <div class="page-header toc-ignore">
<h1 data-toc-skip>How to determine multi-drug resistance (MDR)</h1> <h1 data-toc-skip>How to determine multi-drug resistance (MDR)</h1>
@ -357,19 +357,19 @@ Unique: 2</p>
<div class="sourceCode" id="cb8"><pre class="downlit sourceCode r"> <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> <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"># rifampicin isoniazid gatifloxacin ethambutol pyrazinamide moxifloxacin</span>
<span class="co"># 1 S I I R I I</span> <span class="co"># 1 S S R R I I</span>
<span class="co"># 2 S S I I R R</span> <span class="co"># 2 S R R S I S</span>
<span class="co"># 3 I S S I I R</span> <span class="co"># 3 S I I S R I</span>
<span class="co"># 4 S R S R S R</span> <span class="co"># 4 I I R I S I</span>
<span class="co"># 5 R S R S R R</span> <span class="co"># 5 R I R R S S</span>
<span class="co"># 6 I S S R I S</span> <span class="co"># 6 I R S I I R</span>
<span class="co"># kanamycin</span> <span class="co"># kanamycin</span>
<span class="co"># 1 I</span> <span class="co"># 1 I</span>
<span class="co"># 2 R</span> <span class="co"># 2 S</span>
<span class="co"># 3 I</span> <span class="co"># 3 S</span>
<span class="co"># 4 R</span> <span class="co"># 4 I</span>
<span class="co"># 5 R</span> <span class="co"># 5 R</span>
<span class="co"># 6 I</span></code></pre></div> <span class="co"># 6 S</span></code></pre></div>
<p>We can now add the interpretation of MDR-TB to our data set. You can use:</p> <p>We can now add the interpretation of MDR-TB to our data set. You can use:</p>
<div class="sourceCode" id="cb9"><pre class="downlit sourceCode r"> <div class="sourceCode" id="cb9"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span class="fu"><a href="../reference/mdro.html">mdro</a></span><span class="op">(</span><span class="va">my_TB_data</span>, guideline <span class="op">=</span> <span class="st">"TB"</span><span class="op">)</span></code></pre></div> <code class="sourceCode R"><span class="fu"><a href="../reference/mdro.html">mdro</a></span><span class="op">(</span><span class="va">my_TB_data</span>, guideline <span class="op">=</span> <span class="st">"TB"</span><span class="op">)</span></code></pre></div>
@ -412,40 +412,40 @@ Unique: 5</p>
<tr class="odd"> <tr class="odd">
<td align="left">1</td> <td align="left">1</td>
<td align="left">Mono-resistant</td> <td align="left">Mono-resistant</td>
<td align="right">3144</td> <td align="right">3194</td>
<td align="right">62.88%</td> <td align="right">63.88%</td>
<td align="right">3144</td> <td align="right">3194</td>
<td align="right">62.88%</td> <td align="right">63.88%</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="left">2</td> <td align="left">2</td>
<td align="left">Negative</td> <td align="left">Negative</td>
<td align="right">1027</td> <td align="right">964</td>
<td align="right">20.54%</td> <td align="right">19.28%</td>
<td align="right">4171</td> <td align="right">4158</td>
<td align="right">83.42%</td> <td align="right">83.16%</td>
</tr> </tr>
<tr class="odd"> <tr class="odd">
<td align="left">3</td> <td align="left">3</td>
<td align="left">Multi-drug-resistant</td> <td align="left">Multi-drug-resistant</td>
<td align="right">464</td> <td align="right">451</td>
<td align="right">9.28%</td> <td align="right">9.02%</td>
<td align="right">4635</td> <td align="right">4609</td>
<td align="right">92.70%</td> <td align="right">92.18%</td>
</tr> </tr>
<tr class="even"> <tr class="even">
<td align="left">4</td> <td align="left">4</td>
<td align="left">Poly-resistant</td> <td align="left">Poly-resistant</td>
<td align="right">257</td> <td align="right">253</td>
<td align="right">5.14%</td> <td align="right">5.06%</td>
<td align="right">4892</td> <td align="right">4862</td>
<td align="right">97.84%</td> <td align="right">97.24%</td>
</tr> </tr>
<tr class="odd"> <tr class="odd">
<td align="left">5</td> <td align="left">5</td>
<td align="left">Extensively drug-resistant</td> <td align="left">Extensively drug-resistant</td>
<td align="right">108</td> <td align="right">138</td>
<td align="right">2.16%</td> <td align="right">2.76%</td>
<td align="right">5000</td> <td align="right">5000</td>
<td align="right">100.00%</td> <td align="right">100.00%</td>
</tr> </tr>
@ -464,7 +464,7 @@ Unique: 5</p>
<footer><div class="copyright"> <footer><div class="copyright">
<p></p> <p></p>
<p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link external-link">Corinna Glasner</a>.</p> <p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link external-link">Matthijs S. Berends</a>, Christian F. Luz.</p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

12
docs/articles/MDR_files/header-attrs-2.11/header-attrs.js Normal file
View File

@ -0,0 +1,12 @@
// Pandoc 2.9 adds attributes on both header and div. We remove the former (to
// be compatible with the behavior of Pandoc < 2.8).
document.addEventListener('DOMContentLoaded', function(e) {
var hs = document.querySelectorAll("div.section[class*='level'] > :first-child");
var i, h, a;
for (i = 0; i < hs.length; i++) {
h = hs[i];
if (!/^h[1-6]$/i.test(h.tagName)) continue; // it should be a header h1-h6
a = h.attributes;
while (a.length > 0) h.removeAttribute(a[0].name);
}
});

8
docs/articles/datasets.html
View File

@ -44,7 +44,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9039</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -185,12 +185,12 @@
</header><script src="datasets_files/header-attrs-2.9/header-attrs.js"></script><div class="row"> </header><script src="datasets_files/header-attrs-2.11/header-attrs.js"></script><div class="row">
<div class="col-md-9 contents"> <div class="col-md-9 contents">
<div class="page-header toc-ignore"> <div class="page-header toc-ignore">
<h1 data-toc-skip>Data sets for download / own use</h1> <h1 data-toc-skip>Data sets for download / own use</h1>
<h4 data-toc-skip class="date">03 September 2021</h4> <h4 data-toc-skip class="date">29 September 2021</h4>
<small class="dont-index">Source: <a href="https://github.com/msberends/AMR/blob/master/vignettes/datasets.Rmd" class="external-link"><code>vignettes/datasets.Rmd</code></a></small> <small class="dont-index">Source: <a href="https://github.com/msberends/AMR/blob/master/vignettes/datasets.Rmd" class="external-link"><code>vignettes/datasets.Rmd</code></a></small>
<div class="hidden name"><code>datasets.Rmd</code></div> <div class="hidden name"><code>datasets.Rmd</code></div>
@ -1256,7 +1256,7 @@ If you are reading this page from within R, please <a href="https://msberends.gi
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// Pandoc 2.9 adds attributes on both header and div. We remove the former (to
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<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9030</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
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<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9030</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
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</header><script src="welcome_to_AMR_files/header-attrs-2.9/header-attrs.js"></script><div class="row"> </header><script src="welcome_to_AMR_files/header-attrs-2.11/header-attrs.js"></script><div class="row">
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<h1 data-toc-skip>Welcome to the <code>AMR</code> package</h1> <h1 data-toc-skip>Welcome to the <code>AMR</code> package</h1>
@ -236,7 +236,7 @@
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<p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link external-link">Corinna Glasner</a>.</p> <p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link external-link">Matthijs S. Berends</a>, Christian F. Luz.</p>
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// Pandoc 2.9 adds attributes on both header and div. We remove the former (to
// be compatible with the behavior of Pandoc < 2.8).
document.addEventListener('DOMContentLoaded', function(e) {
var hs = document.querySelectorAll("div.section[class*='level'] > :first-child");
var i, h, a;
for (i = 0; i < hs.length; i++) {
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<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="index.html">AMR (for R)</a> <a class="navbar-link" href="index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9033</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -273,23 +273,23 @@ Antimicrobial Resistance Data. Journal of Statistical Software (accepted for pub
</p> </p>
</li> </li>
<li> <li>
<p><strong><a href='https://www.rug.nl/staff/c.f.luz/'>Christian F. Luz</a></strong>. Author, contributor. <a href='https://orcid.org/0000-0001-5809-5995' target='orcid.widget' aria-label='ORCID'><span class='fab fa-orcid orcid' aria-hidden='true'></span></a> <p><strong>Christian F. Luz</strong>. Author, contributor. <a href='https://orcid.org/0000-0001-5809-5995' target='orcid.widget' aria-label='ORCID'><span class='fab fa-orcid orcid' aria-hidden='true'></span></a>
</p> </p>
</li> </li>
<li> <li>
<p><strong><a href='https://www.rug.nl/staff/a.w.friedrich/'>Alexander W. Friedrich</a></strong>. Author, thesis advisor. <a href='https://orcid.org/0000-0003-4881-038X' target='orcid.widget' aria-label='ORCID'><span class='fab fa-orcid orcid' aria-hidden='true'></span></a> <p><strong>Alexander W. Friedrich</strong>. Thesis advisor. <a href='https://orcid.org/0000-0003-4881-038X' target='orcid.widget' aria-label='ORCID'><span class='fab fa-orcid orcid' aria-hidden='true'></span></a>
</p> </p>
</li> </li>
<li> <li>
<p><strong><a href='https://www.rug.nl/staff/b.sinha/'>Bhanu N. M. Sinha</a></strong>. Author, thesis advisor. <a href='https://orcid.org/0000-0003-1634-0010' target='orcid.widget' aria-label='ORCID'><span class='fab fa-orcid orcid' aria-hidden='true'></span></a> <p><strong>Bhanu N. M. Sinha</strong>. Thesis advisor. <a href='https://orcid.org/0000-0003-1634-0010' target='orcid.widget' aria-label='ORCID'><span class='fab fa-orcid orcid' aria-hidden='true'></span></a>
</p> </p>
</li> </li>
<li> <li>
<p><strong><a href='https://www.rug.nl/staff/c.j.albers/'>Casper J. Albers</a></strong>. Author, thesis advisor. <a href='https://orcid.org/0000-0002-9213-6743' target='orcid.widget' aria-label='ORCID'><span class='fab fa-orcid orcid' aria-hidden='true'></span></a> <p><strong>Casper J. Albers</strong>. Thesis advisor. <a href='https://orcid.org/0000-0002-9213-6743' target='orcid.widget' aria-label='ORCID'><span class='fab fa-orcid orcid' aria-hidden='true'></span></a>
</p> </p>
</li> </li>
<li> <li>
<p><strong><a href='https://www.rug.nl/staff/c.glasner/'>Corinna Glasner</a></strong>. Author, thesis advisor. <a href='https://orcid.org/0000-0003-1241-1328' target='orcid.widget' aria-label='ORCID'><span class='fab fa-orcid orcid' aria-hidden='true'></span></a> <p><strong>Corinna Glasner</strong>. Thesis advisor. <a href='https://orcid.org/0000-0003-1241-1328' target='orcid.widget' aria-label='ORCID'><span class='fab fa-orcid orcid' aria-hidden='true'></span></a>
</p> </p>
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<li> <li>
@ -342,7 +342,7 @@ Antimicrobial Resistance Data. Journal of Statistical Software (accepted for pub
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<p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link">Corinna Glasner</a>.</p></p> <p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, Christian F. Luz.</p></p>
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<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="index.html">AMR (for R)</a> <a class="navbar-link" href="index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9033</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
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@ -201,7 +201,7 @@
<h3 class="hasAnchor"> <h3 class="hasAnchor">
<a href="#what-is-amr-for-r" class="anchor" aria-hidden="true"></a>What is <code>AMR</code> (for R)?</h3> <a href="#what-is-amr-for-r" class="anchor" aria-hidden="true"></a>What is <code>AMR</code> (for R)?</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> 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><code>AMR</code> is a free, open-source and independent <a href="https://www.r-project.org" class="external-link">R package</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>~70,000 distinct microbial species</strong></a> and all <a href="./reference/antibiotics.html"><strong>~550 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>After installing this package, R knows <a href="./reference/microorganisms.html"><strong>~70,000 distinct microbial species</strong></a> and all <a href="./reference/antibiotics.html"><strong>~550 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>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-3.0.0 (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 is <a href="./news">actively maintained</a> and is free software (see <a href="#copyright">Copyright</a>).</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-3.0.0 (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 is <a href="./news">actively maintained</a> and is free software (see <a href="#copyright">Copyright</a>).</p>
<div class="main-content" style="display: inline-block;"> <div class="main-content" style="display: inline-block;">
<p> <p>
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</ul> </ul>
</li> </li>
<li>Use <code><a href="reference/mdro.html">mdro()</a></code> to determine which micro-organisms are multi-drug resistant organisms (MDRO). It supports a variety of international guidelines, such as the MDR-paper by Magiorakos <em>et al.</em> (2012, <a href="https://www.ncbi.nlm.nih.gov/pubmed/?term=21793988" class="external-link">PMID 21793988</a>), the exceptional phenotype definitions of EUCAST and the WHO guideline on multi-drug resistant TB. It also supports the national guidelines of the Netherlands and Germany.</li> <li>Use <code><a href="reference/mdro.html">mdro()</a></code> to determine which micro-organisms are multi-drug resistant organisms (MDRO). It supports a variety of international guidelines, such as the MDR-paper by Magiorakos <em>et al.</em> (2012, <a href="https://www.ncbi.nlm.nih.gov/pubmed/?term=21793988" class="external-link">PMID 21793988</a>), the exceptional phenotype definitions of EUCAST and the WHO guideline on multi-drug resistant TB. It also supports the national guidelines of the Netherlands and Germany.</li>
<li>The <a href="./reference/microorganisms.html">data set microorganisms</a> contains the complete taxonomic tree of ~70,000 microorganisms. Furthermore, some colloquial names and all Gram stains are available, which enables resistance analysis of e.g. different antibiotics per Gram stain. The package also contains functions to look up values in this data set like <code><a href="reference/mo_property.html">mo_genus()</a></code>, <code><a href="reference/mo_property.html">mo_family()</a></code>, <code><a href="reference/mo_property.html">mo_gramstain()</a></code> or even <code><a href="reference/mo_property.html">mo_phylum()</a></code>. Use <code><a href="reference/mo_property.html">mo_snomed()</a></code> to look up any SNOMED CT code associated with a microorganism. As all these function use <code><a href="reference/as.mo.html">as.mo()</a></code> internally, they also use the same intelligent rules for determination. For example, <code><a href="reference/mo_property.html">mo_genus("MRSA")</a></code> and <code><a href="reference/mo_property.html">mo_genus("S. aureus")</a></code> will both return <code>"Staphylococcus"</code>. They also come with support for German, Dutch, Spanish, Italian, French and Portuguese. These functions can be used to add new variables to your data.</li> <li>The <a href="./reference/microorganisms.html">data set microorganisms</a> contains the complete taxonomic tree of ~70,000 microorganisms. Furthermore, some colloquial names and all Gram stains are available, which enables resistance analysis of e.g. different antibiotics per Gram stain. The package also contains functions to look up values in this data set like <code><a href="reference/mo_property.html">mo_genus()</a></code>, <code><a href="reference/mo_property.html">mo_family()</a></code>, <code><a href="reference/mo_property.html">mo_gramstain()</a></code> or even <code><a href="reference/mo_property.html">mo_phylum()</a></code>. Use <code><a href="reference/mo_property.html">mo_snomed()</a></code> to look up any SNOMED CT code associated with a microorganism. As all these function use <code><a href="reference/as.mo.html">as.mo()</a></code> internally, they also use the same intelligent rules for determination. For example, <code><a href="reference/mo_property.html">mo_genus("MRSA")</a></code> and <code><a href="reference/mo_property.html">mo_genus("S. aureus")</a></code> will both return <code>"Staphylococcus"</code>. They also come with support for German, Danish, Dutch, Spanish, Italian, French and Portuguese. These functions can be used to add new variables to your data.</li>
<li>The <a href="./reference/antibiotics.html">data set antibiotics</a> contains ~450 antimicrobial drugs with their EARS-Net code, ATC code, PubChem compound ID, LOINC code, official name, common LIS codes and DDDs of both oral and parenteral administration. It also contains all (thousands of) trade names found in PubChem. Use functions like <code><a href="reference/ab_property.html">ab_name()</a></code>, <code><a href="reference/ab_property.html">ab_group()</a></code>, <code><a href="reference/ab_property.html">ab_atc()</a></code>, <code><a href="reference/ab_property.html">ab_loinc()</a></code> and <code><a href="reference/ab_property.html">ab_tradenames()</a></code> to look up values. The <code>ab_*</code> functions use <code><a href="reference/as.ab.html">as.ab()</a></code> internally so they support the same intelligent rules to guess the most probable result. For example, <code><a href="reference/ab_property.html">ab_name("Fluclox")</a></code>, <code><a href="reference/ab_property.html">ab_name("Floxapen")</a></code> and <code><a href="reference/ab_property.html">ab_name("J01CF05")</a></code> will all return <code>"Flucloxacillin"</code>. These functions can again be used to add new variables to your data.</li> <li>The <a href="./reference/antibiotics.html">data set antibiotics</a> contains ~450 antimicrobial drugs with their EARS-Net code, ATC code, PubChem compound ID, LOINC code, official name, common LIS codes and DDDs of both oral and parenteral administration. It also contains all (thousands of) trade names found in PubChem. Use functions like <code><a href="reference/ab_property.html">ab_name()</a></code>, <code><a href="reference/ab_property.html">ab_group()</a></code>, <code><a href="reference/ab_property.html">ab_atc()</a></code>, <code><a href="reference/ab_property.html">ab_loinc()</a></code> and <code><a href="reference/ab_property.html">ab_tradenames()</a></code> to look up values. The <code>ab_*</code> functions use <code><a href="reference/as.ab.html">as.ab()</a></code> internally so they support the same intelligent rules to guess the most probable result. For example, <code><a href="reference/ab_property.html">ab_name("Fluclox")</a></code>, <code><a href="reference/ab_property.html">ab_name("Floxapen")</a></code> and <code><a href="reference/ab_property.html">ab_name("J01CF05")</a></code> will all return <code>"Flucloxacillin"</code>. These functions can again be used to add new variables to your data.</li>
</ul> </ul>
</li> </li>
@ -544,16 +544,7 @@
<ul class="list-unstyled"> <ul class="list-unstyled">
<li> <li>
<a href="https://www.rug.nl/staff/m.s.berends/">Matthijs S. Berends</a> <br><small class="roles"> Author, maintainer </small> <a href="https://orcid.org/0000-0001-7620-1800" target="orcid.widget" aria-label="ORCID"><span class="fab fa-orcid orcid" aria-hidden="true"></span></a> </li> <a href="https://www.rug.nl/staff/m.s.berends/">Matthijs S. Berends</a> <br><small class="roles"> Author, maintainer </small> <a href="https://orcid.org/0000-0001-7620-1800" target="orcid.widget" aria-label="ORCID"><span class="fab fa-orcid orcid" aria-hidden="true"></span></a> </li>
<li> <li>Christian F. Luz <br><small class="roles"> Author, contributor </small> <a href="https://orcid.org/0000-0001-5809-5995" target="orcid.widget" aria-label="ORCID"><span class="fab fa-orcid orcid" aria-hidden="true"></span></a> </li>
<a href="https://www.rug.nl/staff/c.f.luz/">Christian F. Luz</a> <br><small class="roles"> Author, contributor </small> <a href="https://orcid.org/0000-0001-5809-5995" target="orcid.widget" aria-label="ORCID"><span class="fab fa-orcid orcid" aria-hidden="true"></span></a> </li>
<li>
<a href="https://www.rug.nl/staff/a.w.friedrich/">Alexander W. Friedrich</a> <br><small class="roles"> Author, thesis advisor </small> <a href="https://orcid.org/0000-0003-4881-038X" target="orcid.widget" aria-label="ORCID"><span class="fab fa-orcid orcid" aria-hidden="true"></span></a> </li>
<li>
<a href="https://www.rug.nl/staff/b.sinha/">Bhanu N. M. Sinha</a> <br><small class="roles"> Author, thesis advisor </small> <a href="https://orcid.org/0000-0003-1634-0010" target="orcid.widget" aria-label="ORCID"><span class="fab fa-orcid orcid" aria-hidden="true"></span></a> </li>
<li>
<a href="https://www.rug.nl/staff/c.j.albers/">Casper J. Albers</a> <br><small class="roles"> Author, thesis advisor </small> <a href="https://orcid.org/0000-0002-9213-6743" target="orcid.widget" aria-label="ORCID"><span class="fab fa-orcid orcid" aria-hidden="true"></span></a> </li>
<li>
<a href="https://www.rug.nl/staff/c.glasner/">Corinna Glasner</a> <br><small class="roles"> Author, thesis advisor </small> <a href="https://orcid.org/0000-0003-1241-1328" target="orcid.widget" aria-label="ORCID"><span class="fab fa-orcid orcid" aria-hidden="true"></span></a> </li>
<li><a href="authors.html">More on authors...</a></li> <li><a href="authors.html">More on authors...</a></li>
</ul> </ul>
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<footer><div class="copyright"> <footer><div class="copyright">
<p></p> <p></p>
<p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link">Corinna Glasner</a>.</p> <p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, Christian F. Luz.</p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

15
docs/news/index.html
View File

@ -92,7 +92,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9039</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -240,12 +240,12 @@
<small>Source: <a href='https://github.com/msberends/AMR/blob/master/NEWS.md'><code>NEWS.md</code></a></small> <small>Source: <a href='https://github.com/msberends/AMR/blob/master/NEWS.md'><code>NEWS.md</code></a></small>
</div> </div>
<div id="amr-1719039" class="section level1"> <div id="amr-1719040" class="section level1">
<h1 class="page-header" data-toc-text="1.7.1.9039"> <h1 class="page-header" data-toc-text="1.7.1.9040">
<a href="#amr-1719039" class="anchor" aria-hidden="true"></a><small> Unreleased </small><code>AMR</code> 1.7.1.9039</h1> <a href="#amr-1719040" class="anchor" aria-hidden="true"></a><small> Unreleased </small><code>AMR</code> 1.7.1.9040</h1>
<div id="last-updated-3-september-2021" class="section level2"> <div id="last-updated-29-september-2021" class="section level2">
<h2 class="hasAnchor"> <h2 class="hasAnchor">
<a href="#last-updated-3-september-2021" class="anchor" aria-hidden="true"></a><small>Last updated: 3 September 2021</small> <a href="#last-updated-29-september-2021" class="anchor" aria-hidden="true"></a><small>Last updated: 29 September 2021</small>
</h2> </h2>
<div id="breaking-changes" class="section level3"> <div id="breaking-changes" class="section level3">
<h3 class="hasAnchor"> <h3 class="hasAnchor">
@ -259,6 +259,7 @@
<h3 class="hasAnchor"> <h3 class="hasAnchor">
<a href="#new" class="anchor" aria-hidden="true"></a>New</h3> <a href="#new" class="anchor" aria-hidden="true"></a>New</h3>
<ul><li>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.</li> <ul><li>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.</li>
<li>Support for Danish, and also added missing translations of all antimicrobial drugs in Italian, French and Portuguese</li>
</ul></div> </ul></div>
<div id="changed" class="section level3"> <div id="changed" class="section level3">
<h3 class="hasAnchor"> <h3 class="hasAnchor">
@ -2044,7 +2045,7 @@ This works for all drug combinations, such as ampicillin/sulbactam, ceftazidime/
<footer> <footer>
<div class="copyright"> <div class="copyright">
<p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link">Christian F. Luz</a>.</p></p> <p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, Christian F. Luz.</p></p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

4
docs/reference/AMR-deprecated.html
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@ -93,7 +93,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9030</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -271,7 +271,7 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>retired</
<footer> <footer>
<div class="copyright"> <div class="copyright">
<p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link">Corinna Glasner</a>.</p></p> <p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, Christian F. Luz.</p></p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

49
docs/reference/ab_property.html
View File

@ -93,7 +93,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9030</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -248,13 +248,6 @@
<div class="ref-usage 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 class="ref-usage 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>
<span class='fu'>set_ab_names</span><span class='op'>(</span>
<span class='va'>data</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>,
snake_case <span class='op'>=</span> <span class='va'>property</span> <span class='op'>==</span> <span class='st'>"name"</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> <span class='fu'>ab_cid</span><span class='op'>(</span><span class='va'>x</span>, <span class='va'>...</span><span class='op'>)</span>
<span class='fu'>ab_synonyms</span><span class='op'>(</span><span class='va'>x</span>, <span class='va'>...</span><span class='op'>)</span> <span class='fu'>ab_synonyms</span><span class='op'>(</span><span class='va'>x</span>, <span class='va'>...</span><span class='op'>)</span>
@ -279,7 +272,14 @@
<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_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></code></pre></div> <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'>set_ab_names</span><span class='op'>(</span>
<span class='va'>data</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>,
snake_case <span class='op'>=</span> <span class='cn'>NULL</span>
<span class='op'>)</span></code></pre></div>
<h2 class="hasAnchor" id="arguments"><a class="anchor" href="#arguments"></a>Arguments</h2> <h2 class="hasAnchor" id="arguments"><a class="anchor" href="#arguments"></a>Arguments</h2>
<table class="ref-arguments"> <table class="ref-arguments">
@ -300,18 +300,6 @@
<th>...</th> <th>...</th>
<td><p>other arguments passed on to <code><a href='as.ab.html'>as.ab()</a></code></p></td> <td><p>other arguments passed on to <code><a href='as.ab.html'>as.ab()</a></code></p></td>
</tr> </tr>
<tr>
<th>data</th>
<td><p>a <a href='https://rdrr.io/r/base/data.frame.html'>data.frame</a> of which the columns need to be renamed</p></td>
</tr>
<tr>
<th>property</th>
<td><p>one of the column names of one of the <a href='antibiotics.html'>antibiotics</a> data set: <code>vector_or(colnames(antibiotics), sort = FALSE)</code>.</p></td>
</tr>
<tr>
<th>snake_case</th>
<td><p>a <a href='https://rdrr.io/r/base/logical.html'>logical</a> to indicate whether the names should be in so-called <a href='https://en.wikipedia.org/wiki/Snake_case'>snake case</a>: in lower case and all spaces/slashes replaced with an underscore (<code>_</code>)</p></td>
</tr>
<tr> <tr>
<th>only_first</th> <th>only_first</th>
<td><p>a <a href='https://rdrr.io/r/base/logical.html'>logical</a> to indicate whether only the first ATC code must be returned, with giving preference to J0-codes (i.e., the antimicrobial drug group)</p></td> <td><p>a <a href='https://rdrr.io/r/base/logical.html'>logical</a> to indicate whether only the first ATC code must be returned, with giving preference to J0-codes (i.e., the antimicrobial drug group)</p></td>
@ -324,6 +312,18 @@
<th>open</th> <th>open</th>
<td><p>browse the URL using <code><a href='https://rdrr.io/r/utils/browseURL.html'>utils::browseURL()</a></code></p></td> <td><p>browse the URL using <code><a href='https://rdrr.io/r/utils/browseURL.html'>utils::browseURL()</a></code></p></td>
</tr> </tr>
<tr>
<th>property</th>
<td><p>one of the column names of one of the <a href='antibiotics.html'>antibiotics</a> data set: <code>vector_or(colnames(antibiotics), sort = FALSE)</code>.</p></td>
</tr>
<tr>
<th>data</th>
<td><p>a <a href='https://rdrr.io/r/base/data.frame.html'>data.frame</a> of which the columns need to be renamed, or a <a href='https://rdrr.io/r/base/character.html'>character</a> vector of column names</p></td>
</tr>
<tr>
<th>snake_case</th>
<td><p>a <a href='https://rdrr.io/r/base/logical.html'>logical</a> to indicate whether the names should be in so-called <a href='https://en.wikipedia.org/wiki/Snake_case'>snake case</a>: in lower case and all spaces/slashes replaced with an underscore (<code>_</code>)</p></td>
</tr>
</table> </table>
<h2 class="hasAnchor" id="value"><a class="anchor" href="#value"></a>Value</h2> <h2 class="hasAnchor" id="value"><a class="anchor" href="#value"></a>Value</h2>
@ -416,6 +416,11 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>stable</s
<span class='kw'>if</span> <span class='op'>(</span><span class='kw'><a href='https://rdrr.io/r/base/library.html'>require</a></span><span class='op'>(</span><span class='st'><a href='https://dplyr.tidyverse.org'>"dplyr"</a></span><span class='op'>)</span><span class='op'>)</span> <span class='op'>{</span> <span class='kw'>if</span> <span class='op'>(</span><span class='kw'><a href='https://rdrr.io/r/base/library.html'>require</a></span><span class='op'>(</span><span class='st'><a href='https://dplyr.tidyverse.org'>"dplyr"</a></span><span class='op'>)</span><span class='op'>)</span> <span class='op'>{</span>
<span class='va'>example_isolates</span> <span class='op'>%&gt;%</span> <span class='va'>example_isolates</span> <span class='op'>%&gt;%</span>
<span class='fu'>set_ab_names</span><span class='op'>(</span><span class='op'>)</span> <span class='fu'>set_ab_names</span><span class='op'>(</span><span class='op'>)</span>
<span class='co'># this does the same:</span>
<span class='va'>example_isolates</span> <span class='op'>%&gt;%</span>
<span class='fu'><a href='https://dplyr.tidyverse.org/reference/rename.html'>rename_with</a></span><span class='op'>(</span><span class='va'>set_ab_names</span><span class='op'>)</span>
<span class='co'># set_ab_names() works with any AB property:</span> <span class='co'># set_ab_names() works with any AB property:</span>
<span class='va'>example_isolates</span> <span class='op'>%&gt;%</span> <span class='va'>example_isolates</span> <span class='op'>%&gt;%</span>
<span class='fu'>set_ab_names</span><span class='op'>(</span><span class='st'>"atc"</span><span class='op'>)</span> <span class='fu'>set_ab_names</span><span class='op'>(</span><span class='st'>"atc"</span><span class='op'>)</span>
@ -433,7 +438,7 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>stable</s
<footer> <footer>
<div class="copyright"> <div class="copyright">
<p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link">Corinna Glasner</a>.</p></p> <p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, Christian F. Luz.</p></p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

4
docs/reference/antibiotic_class_selectors.html
View File

@ -93,7 +93,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9030</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -505,7 +505,7 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>stable</s
<footer> <footer>
<div class="copyright"> <div class="copyright">
<p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link">Corinna Glasner</a>.</p></p> <p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, Christian F. Luz.</p></p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

4
docs/reference/antibiotics.html
View File

@ -93,7 +93,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9030</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -470,7 +470,7 @@ This package contains <strong>all ~550 antibiotic, antimycotic and antiviral dru
<footer> <footer>
<div class="copyright"> <div class="copyright">
<p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link">Corinna Glasner</a>.</p></p> <p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, Christian F. Luz.</p></p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

4
docs/reference/as.ab.html
View File

@ -93,7 +93,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9030</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -372,7 +372,7 @@ This package contains <strong>all ~550 antibiotic, antimycotic and antiviral dru
<footer> <footer>
<div class="copyright"> <div class="copyright">
<p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link">Corinna Glasner</a>.</p></p> <p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, Christian F. Luz.</p></p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

4
docs/reference/as.mo.html
View File

@ -93,7 +93,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9030</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -483,7 +483,7 @@ This package contains the complete taxonomic tree of almost all microorganisms (
<footer> <footer>
<div class="copyright"> <div class="copyright">
<p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link">Corinna Glasner</a>.</p></p> <p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, Christian F. Luz.</p></p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

4
docs/reference/as.rsi.html
View File

@ -93,7 +93,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9030</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -517,7 +517,7 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>stable</s
<footer> <footer>
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@ -93,7 +93,7 @@
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@ -357,7 +357,7 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>stable</s
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docs/reference/count.html
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@ -94,7 +94,7 @@ count_resistant() should be used to count resistant isolates, count_susceptible(
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@ -456,7 +456,7 @@ A microorganism is categorised as <em>Susceptible, Increased exposure</em> when
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docs/reference/custom_eucast_rules.html
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@ -93,7 +93,7 @@
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@ -384,7 +384,7 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>maturing<
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docs/reference/eucast_rules.html
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@ -94,7 +94,7 @@ To improve the interpretation of the antibiogram before EUCAST rules are applied
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@ -442,7 +442,7 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>stable</s
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docs/reference/first_isolate.html
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@ -94,7 +94,7 @@
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@ -510,7 +510,7 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>stable</s
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@ -93,7 +93,7 @@
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@ -524,7 +524,7 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>stable</s
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docs/reference/index.html
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@ -92,7 +92,7 @@
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</span> </span>
</div> </div>
@ -299,7 +299,7 @@
</tr><tr> </tr><tr>
<td> <td>
<p><code><a href="ab_property.html">ab_name()</a></code> <code><a href="ab_property.html">set_ab_names()</a></code> <code><a href="ab_property.html">ab_cid()</a></code> <code><a href="ab_property.html">ab_synonyms()</a></code> <code><a href="ab_property.html">ab_tradenames()</a></code> <code><a href="ab_property.html">ab_group()</a></code> <code><a href="ab_property.html">ab_atc()</a></code> <code><a href="ab_property.html">ab_atc_group1()</a></code> <code><a href="ab_property.html">ab_atc_group2()</a></code> <code><a href="ab_property.html">ab_loinc()</a></code> <code><a href="ab_property.html">ab_ddd()</a></code> <code><a href="ab_property.html">ab_ddd_units()</a></code> <code><a href="ab_property.html">ab_info()</a></code> <code><a href="ab_property.html">ab_url()</a></code> <code><a href="ab_property.html">ab_property()</a></code> </p> <p><code><a href="ab_property.html">ab_name()</a></code> <code><a href="ab_property.html">ab_cid()</a></code> <code><a href="ab_property.html">ab_synonyms()</a></code> <code><a href="ab_property.html">ab_tradenames()</a></code> <code><a href="ab_property.html">ab_group()</a></code> <code><a href="ab_property.html">ab_atc()</a></code> <code><a href="ab_property.html">ab_atc_group1()</a></code> <code><a href="ab_property.html">ab_atc_group2()</a></code> <code><a href="ab_property.html">ab_loinc()</a></code> <code><a href="ab_property.html">ab_ddd()</a></code> <code><a href="ab_property.html">ab_ddd_units()</a></code> <code><a href="ab_property.html">ab_info()</a></code> <code><a href="ab_property.html">ab_url()</a></code> <code><a href="ab_property.html">ab_property()</a></code> <code><a href="ab_property.html">set_ab_names()</a></code> </p>
</td> </td>
<td><p>Get Properties of an Antibiotic</p></td> <td><p>Get Properties of an Antibiotic</p></td>
</tr><tr> </tr><tr>
@ -689,7 +689,7 @@
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4
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@ -93,7 +93,7 @@
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@ -307,7 +307,7 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>maturing<
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docs/reference/mdro.html
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@ -93,7 +93,7 @@
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@ -461,7 +461,7 @@ A microorganism is categorised as <em>Susceptible, Increased exposure</em> when
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4
docs/reference/mo_matching_score.html
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@ -93,7 +93,7 @@
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@ -318,7 +318,7 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>stable</s
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4
docs/reference/mo_property.html
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@ -93,7 +93,7 @@
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</div> </div>
@ -531,7 +531,7 @@ This package contains the complete taxonomic tree of almost all microorganisms (
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docs/reference/proportion.html
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@ -94,7 +94,7 @@ resistance() should be used to calculate resistance, susceptibility() should be
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@ -482,7 +482,7 @@ A microorganism is categorised as <em>Susceptible, Increased exposure</em> when
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4
docs/reference/random.html
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@ -93,7 +93,7 @@
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@ -324,7 +324,7 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>stable</s
<footer> <footer>
<div class="copyright"> <div class="copyright">
<p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link">Corinna Glasner</a>.</p></p> <p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, Christian F. Luz.</p></p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

4
docs/reference/resistance_predict.html
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@ -93,7 +93,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9030</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -477,7 +477,7 @@ A microorganism is categorised as <em>Susceptible, Increased exposure</em> when
<footer> <footer>
<div class="copyright"> <div class="copyright">
<p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link">Corinna Glasner</a>.</p></p> <p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, Christian F. Luz.</p></p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

22
docs/reference/translate.html
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@ -93,7 +93,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a> <a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9030</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -252,7 +252,7 @@
<h2 class="hasAnchor" id="details"><a class="anchor" href="#details"></a>Details</h2> <h2 class="hasAnchor" id="details"><a class="anchor" href="#details"></a>Details</h2>
<p>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: <a href='https://github.com/msberends/AMR/blob/master/data-raw/translations.tsv'>https://github.com/msberends/AMR/blob/master/data-raw/translations.tsv</a>. This file will be read by all functions where a translated output can be desired, like all <code><a href='mo_property.html'>mo_*</a></code> functions (such as <code><a href='mo_property.html'>mo_name()</a></code>, <code><a href='mo_property.html'>mo_gramstain()</a></code>, <code><a href='mo_property.html'>mo_type()</a></code>, etc.) and <code><a href='ab_property.html'>ab_*</a></code> functions (such as <code><a href='ab_property.html'>ab_name()</a></code>, <code><a href='ab_property.html'>ab_group()</a></code>, etc.).</p> <p>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: <a href='https://github.com/msberends/AMR/blob/master/data-raw/translations.tsv'>https://github.com/msberends/AMR/blob/master/data-raw/translations.tsv</a>. This file will be read by all functions where a translated output can be desired, like all <code><a href='mo_property.html'>mo_*</a></code> functions (such as <code><a href='mo_property.html'>mo_name()</a></code>, <code><a href='mo_property.html'>mo_gramstain()</a></code>, <code><a href='mo_property.html'>mo_type()</a></code>, etc.) and <code><a href='ab_property.html'>ab_*</a></code> functions (such as <code><a href='ab_property.html'>ab_name()</a></code>, <code><a href='ab_property.html'>ab_group()</a></code>, etc.).</p>
<p>Currently supported languages are: Dutch, English, French, German, Italian, Portuguese and Spanish. Please note that currently not all these languages have translations available for all antimicrobial agents and colloquial microorganism names.</p> <p>Currently supported languages are: Danish, Dutch, English, French, German, Italian, Portuguese and Spanish. All these languages have translations available for all antimicrobial agents and colloquial microorganism names.</p>
<p>Please suggest your own translations <a href='https://github.com/msberends/AMR/issues/new?title=Translations'>by creating a new issue on our repository</a>.</p><h3 class='hasAnchor' id='changing-the-default-language'><a class='anchor' aria-hidden='true' href='#changing-the-default-language'></a>Changing the Default Language</h3> <p>Please suggest your own translations <a href='https://github.com/msberends/AMR/issues/new?title=Translations'>by creating a new issue on our repository</a>.</p><h3 class='hasAnchor' id='changing-the-default-language'><a class='anchor' aria-hidden='true' href='#changing-the-default-language'></a>Changing the Default Language</h3>
@ -285,17 +285,17 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>stable</s
<span class='fu'><a href='mo_property.html'>mo_name</a></span><span class='op'>(</span><span class='st'>"CoNS"</span>, language <span class='op'>=</span> <span class='st'>"en"</span><span class='op'>)</span> <span class='fu'><a href='mo_property.html'>mo_name</a></span><span class='op'>(</span><span class='st'>"CoNS"</span>, language <span class='op'>=</span> <span class='st'>"en"</span><span class='op'>)</span>
<span class='co'>#&gt; "Coagulase-negative Staphylococcus (CoNS)"</span> <span class='co'>#&gt; "Coagulase-negative Staphylococcus (CoNS)"</span>
<span class='co'># German</span> <span class='co'># Danish</span>
<span class='fu'><a href='mo_property.html'>mo_name</a></span><span class='op'>(</span><span class='st'>"CoNS"</span>, language <span class='op'>=</span> <span class='st'>"de"</span><span class='op'>)</span> <span class='fu'><a href='mo_property.html'>mo_name</a></span><span class='op'>(</span><span class='st'>"CoNS"</span>, language <span class='op'>=</span> <span class='st'>"nl"</span><span class='op'>)</span>
<span class='co'>#&gt; "Koagulase-negative Staphylococcus (KNS)"</span> <span class='co'>#&gt; "Koagulase-negative stafylokokker (CoNS)"</span>
<span class='co'># Dutch</span> <span class='co'># Dutch</span>
<span class='fu'><a href='mo_property.html'>mo_name</a></span><span class='op'>(</span><span class='st'>"CoNS"</span>, language <span class='op'>=</span> <span class='st'>"nl"</span><span class='op'>)</span> <span class='fu'><a href='mo_property.html'>mo_name</a></span><span class='op'>(</span><span class='st'>"CoNS"</span>, language <span class='op'>=</span> <span class='st'>"nl"</span><span class='op'>)</span>
<span class='co'>#&gt; "Coagulase-negatieve Staphylococcus (CNS)"</span> <span class='co'>#&gt; "Coagulase-negatieve Staphylococcus (CNS)"</span>
<span class='co'># Spanish</span> <span class='co'># German</span>
<span class='fu'><a href='mo_property.html'>mo_name</a></span><span class='op'>(</span><span class='st'>"CoNS"</span>, language <span class='op'>=</span> <span class='st'>"es"</span><span class='op'>)</span> <span class='fu'><a href='mo_property.html'>mo_name</a></span><span class='op'>(</span><span class='st'>"CoNS"</span>, language <span class='op'>=</span> <span class='st'>"de"</span><span class='op'>)</span>
<span class='co'>#&gt; "Staphylococcus coagulasa negativo (SCN)"</span> <span class='co'>#&gt; "Koagulase-negative Staphylococcus (KNS)"</span>
<span class='co'># Italian</span> <span class='co'># Italian</span>
<span class='fu'><a href='mo_property.html'>mo_name</a></span><span class='op'>(</span><span class='st'>"CoNS"</span>, language <span class='op'>=</span> <span class='st'>"it"</span><span class='op'>)</span> <span class='fu'><a href='mo_property.html'>mo_name</a></span><span class='op'>(</span><span class='st'>"CoNS"</span>, language <span class='op'>=</span> <span class='st'>"it"</span><span class='op'>)</span>
@ -304,6 +304,10 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>stable</s
<span class='co'># Portuguese</span> <span class='co'># Portuguese</span>
<span class='fu'><a href='mo_property.html'>mo_name</a></span><span class='op'>(</span><span class='st'>"CoNS"</span>, language <span class='op'>=</span> <span class='st'>"pt"</span><span class='op'>)</span> <span class='fu'><a href='mo_property.html'>mo_name</a></span><span class='op'>(</span><span class='st'>"CoNS"</span>, language <span class='op'>=</span> <span class='st'>"pt"</span><span class='op'>)</span>
<span class='co'>#&gt; "Staphylococcus coagulase negativo (CoNS)"</span> <span class='co'>#&gt; "Staphylococcus coagulase negativo (CoNS)"</span>
<span class='co'># Spanish</span>
<span class='fu'><a href='mo_property.html'>mo_name</a></span><span class='op'>(</span><span class='st'>"CoNS"</span>, language <span class='op'>=</span> <span class='st'>"es"</span><span class='op'>)</span>
<span class='co'>#&gt; "Staphylococcus coagulasa negativo (SCN)"</span>
</code></pre></div> </code></pre></div>
</div> </div>
<div class="col-md-3 hidden-xs hidden-sm" id="pkgdown-sidebar"> <div class="col-md-3 hidden-xs hidden-sm" id="pkgdown-sidebar">
@ -316,7 +320,7 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>stable</s
<footer> <footer>
<div class="copyright"> <div class="copyright">
<p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link">Corinna Glasner</a>.</p></p> <p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, Christian F. Luz.</p></p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

4
docs/survey.html
View File

@ -92,7 +92,7 @@
</button> </button>
<span class="navbar-brand"> <span class="navbar-brand">
<a class="navbar-link" href="index.html">AMR (for R)</a> <a class="navbar-link" href="index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9033</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9040</span>
</span> </span>
</div> </div>
@ -255,7 +255,7 @@
<footer> <footer>
<div class="copyright"> <div class="copyright">
<p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, <a href="https://www.rug.nl/staff/c.f.luz/" class="external-link">Christian F. Luz</a>, <a href="https://www.rug.nl/staff/a.w.friedrich/" class="external-link">Alexander W. Friedrich</a>, <a href="https://www.rug.nl/staff/b.sinha/" class="external-link">Bhanu N. M. Sinha</a>, <a href="https://www.rug.nl/staff/c.j.albers/" class="external-link">Casper J. Albers</a>, <a href="https://www.rug.nl/staff/c.glasner/" class="external-link">Corinna Glasner</a>.</p></p> <p><p>Developed by <a href="https://www.rug.nl/staff/m.s.berends/" class="external-link">Matthijs S. Berends</a>, Christian F. Luz.</p></p>
</div> </div>
<div class="pkgdown"> <div class="pkgdown">

4
index.md
View File

@ -6,7 +6,7 @@
`AMR` is a free, open-source and independent [R package](https://www.r-project.org) 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. **Our aim is to provide a standard** for clean and reproducible AMR data analysis, that can therefore empower epidemiological analyses to continuously enable surveillance and treatment evaluation in any setting. `AMR` is a free, open-source and independent [R package](https://www.r-project.org) 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. **Our aim is to provide a standard** for clean and reproducible AMR data analysis, that can therefore empower epidemiological analyses to continuously enable surveillance and treatment evaluation in any setting.
After installing this package, R knows [**~70,000 distinct microbial species**](./reference/microorganisms.html) and all [**~550 antibiotic, antimycotic and antiviral drugs**](./reference/antibiotics.html) 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. After installing this package, R knows [**~70,000 distinct microbial species**](./reference/microorganisms.html) and all [**~550 antibiotic, antimycotic and antiviral drugs**](./reference/antibiotics.html) 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.
This package is [fully independent of any other R package](https://en.wikipedia.org/wiki/Dependency_hell) and works on Windows, macOS and Linux with all versions of R since R-3.0.0 (April 2013). **It was designed to work in any setting, including those with very limited resources**. It was created for both routine data analysis and academic research at the Faculty of Medical Sciences of the [University of Groningen](https://www.rug.nl), in collaboration with non-profit organisations [Certe Medical Diagnostics and Advice Foundation](https://www.certe.nl) and [University Medical Center Groningen](https://www.umcg.nl). This R package is [actively maintained](./news) and is free software (see [Copyright](#copyright)). This package is [fully independent of any other R package](https://en.wikipedia.org/wiki/Dependency_hell) and works on Windows, macOS and Linux with all versions of R since R-3.0.0 (April 2013). **It was designed to work in any setting, including those with very limited resources**. It was created for both routine data analysis and academic research at the Faculty of Medical Sciences of the [University of Groningen](https://www.rug.nl), in collaboration with non-profit organisations [Certe Medical Diagnostics and Advice Foundation](https://www.certe.nl) and [University Medical Center Groningen](https://www.umcg.nl). This R package is [actively maintained](./news) and is free software (see [Copyright](#copyright)).
@ -177,7 +177,7 @@ The `AMR` package basically does four important things:
* Use `first_isolate()` to identify the first isolates of every patient [using guidelines from the CLSI](https://clsi.org/standards/products/microbiology/documents/m39/) (Clinical and Laboratory Standards Institute). * Use `first_isolate()` to identify the first isolates of every patient [using guidelines from the CLSI](https://clsi.org/standards/products/microbiology/documents/m39/) (Clinical and Laboratory Standards Institute).
* You can also identify first *weighted* isolates of every patient, an adjusted version of the CLSI guideline. This takes into account key antibiotics of every strain and compares them. * You can also identify first *weighted* isolates of every patient, an adjusted version of the CLSI guideline. This takes into account key antibiotics of every strain and compares them.
* Use `mdro()` to determine which micro-organisms are multi-drug resistant organisms (MDRO). It supports a variety of international guidelines, such as the MDR-paper by Magiorakos *et al.* (2012, [PMID 21793988](https://www.ncbi.nlm.nih.gov/pubmed/?term=21793988)), the exceptional phenotype definitions of EUCAST and the WHO guideline on multi-drug resistant TB. It also supports the national guidelines of the Netherlands and Germany. * Use `mdro()` to determine which micro-organisms are multi-drug resistant organisms (MDRO). It supports a variety of international guidelines, such as the MDR-paper by Magiorakos *et al.* (2012, [PMID 21793988](https://www.ncbi.nlm.nih.gov/pubmed/?term=21793988)), the exceptional phenotype definitions of EUCAST and the WHO guideline on multi-drug resistant TB. It also supports the national guidelines of the Netherlands and Germany.
* The [data set microorganisms](./reference/microorganisms.html) contains the complete taxonomic tree of ~70,000 microorganisms. Furthermore, some colloquial names and all Gram stains are available, which enables resistance analysis of e.g. different antibiotics per Gram stain. The package also contains functions to look up values in this data set like `mo_genus()`, `mo_family()`, `mo_gramstain()` or even `mo_phylum()`. Use `mo_snomed()` to look up any SNOMED CT code associated with a microorganism. As all these function use `as.mo()` internally, they also use the same intelligent rules for determination. For example, `mo_genus("MRSA")` and `mo_genus("S. aureus")` will both return `"Staphylococcus"`. They also come with support for German, Dutch, Spanish, Italian, French and Portuguese. These functions can be used to add new variables to your data. * The [data set microorganisms](./reference/microorganisms.html) contains the complete taxonomic tree of ~70,000 microorganisms. Furthermore, some colloquial names and all Gram stains are available, which enables resistance analysis of e.g. different antibiotics per Gram stain. The package also contains functions to look up values in this data set like `mo_genus()`, `mo_family()`, `mo_gramstain()` or even `mo_phylum()`. Use `mo_snomed()` to look up any SNOMED CT code associated with a microorganism. As all these function use `as.mo()` internally, they also use the same intelligent rules for determination. For example, `mo_genus("MRSA")` and `mo_genus("S. aureus")` will both return `"Staphylococcus"`. They also come with support for German, Danish, Dutch, Spanish, Italian, French and Portuguese. These functions can be used to add new variables to your data.
* The [data set antibiotics](./reference/antibiotics.html) contains ~450 antimicrobial drugs with their EARS-Net code, ATC code, PubChem compound ID, LOINC code, official name, common LIS codes and DDDs of both oral and parenteral administration. It also contains all (thousands of) trade names found in PubChem. Use functions like `ab_name()`, `ab_group()`, `ab_atc()`, `ab_loinc()` and `ab_tradenames()` to look up values. The `ab_*` functions use `as.ab()` internally so they support the same intelligent rules to guess the most probable result. For example, `ab_name("Fluclox")`, `ab_name("Floxapen")` and `ab_name("J01CF05")` will all return `"Flucloxacillin"`. These functions can again be used to add new variables to your data. * The [data set antibiotics](./reference/antibiotics.html) contains ~450 antimicrobial drugs with their EARS-Net code, ATC code, PubChem compound ID, LOINC code, official name, common LIS codes and DDDs of both oral and parenteral administration. It also contains all (thousands of) trade names found in PubChem. Use functions like `ab_name()`, `ab_group()`, `ab_atc()`, `ab_loinc()` and `ab_tradenames()` to look up values. The `ab_*` functions use `as.ab()` internally so they support the same intelligent rules to guess the most probable result. For example, `ab_name("Fluclox")`, `ab_name("Floxapen")` and `ab_name("J01CF05")` will all return `"Flucloxacillin"`. These functions can again be used to add new variables to your data.
3. It **analyses the data** with convenient functions that use well-known methods. 3. It **analyses the data** with convenient functions that use well-known methods.

6
inst/tinytest/test-ab_property.R
View File

@ -65,5 +65,11 @@ expect_warning(ab_url("ASP"))
expect_identical(colnames(set_ab_names(example_isolates[, 20:25])), expect_identical(colnames(set_ab_names(example_isolates[, 20:25])),
c("cefoxitin", "cefotaxime", "ceftazidime", "ceftriaxone", "gentamicin", "tobramycin")) c("cefoxitin", "cefotaxime", "ceftazidime", "ceftriaxone", "gentamicin", "tobramycin"))
expect_identical(colnames(set_ab_names(example_isolates[, 20:25], language = "nl", snake_case = FALSE)),
c("Cefoxitine", "Cefotaxim", "Ceftazidim", "Ceftriaxon", "Gentamicine", "Tobramycine"))
expect_identical(colnames(set_ab_names(example_isolates[, 20:25], "atc")), expect_identical(colnames(set_ab_names(example_isolates[, 20:25], "atc")),
c("J01DC01", "J01DD01", "J01DD02", "J01DD04", "J01GB03", "J01GB01")) c("J01DC01", "J01DD01", "J01DD02", "J01DD04", "J01GB03", "J01GB01"))
if (AMR:::pkg_is_available("dplyr")) {
expect_identical(example_isolates %>% set_ab_names(),
example_isolates %>% rename_with(set_ab_names))
}

35
man/ab_property.Rd
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@ -3,13 +3,12 @@
\name{ab_property} \name{ab_property}
\alias{ab_property} \alias{ab_property}
\alias{ab_name} \alias{ab_name}
\alias{set_ab_names}
\alias{ATC}
\alias{ab_cid} \alias{ab_cid}
\alias{ab_synonyms} \alias{ab_synonyms}
\alias{ab_tradenames} \alias{ab_tradenames}
\alias{ab_group} \alias{ab_group}
\alias{ab_atc} \alias{ab_atc}
\alias{ATC}
\alias{ab_atc_group1} \alias{ab_atc_group1}
\alias{ab_atc_group2} \alias{ab_atc_group2}
\alias{ab_loinc} \alias{ab_loinc}
@ -17,17 +16,11 @@
\alias{ab_ddd_units} \alias{ab_ddd_units}
\alias{ab_info} \alias{ab_info}
\alias{ab_url} \alias{ab_url}
\alias{set_ab_names}
\title{Get Properties of an Antibiotic} \title{Get Properties of an Antibiotic}
\usage{ \usage{
ab_name(x, language = get_locale(), tolower = FALSE, ...) ab_name(x, language = get_locale(), tolower = FALSE, ...)
set_ab_names(
data,
property = "name",
language = get_locale(),
snake_case = property == "name"
)
ab_cid(x, ...) ab_cid(x, ...)
ab_synonyms(x, ...) ab_synonyms(x, ...)
@ -53,6 +46,13 @@ ab_info(x, language = get_locale(), ...)
ab_url(x, open = FALSE, ...) ab_url(x, open = FALSE, ...)
ab_property(x, property = "name", language = get_locale(), ...) ab_property(x, property = "name", language = get_locale(), ...)
set_ab_names(
data,
property = "name",
language = get_locale(),
snake_case = NULL
)
} }
\arguments{ \arguments{
\item{x}{any (vector of) text that can be coerced to a valid antibiotic code with \code{\link[=as.ab]{as.ab()}}} \item{x}{any (vector of) text that can be coerced to a valid antibiotic code with \code{\link[=as.ab]{as.ab()}}}
@ -63,17 +63,17 @@ ab_property(x, property = "name", language = get_locale(), ...)
\item{...}{other arguments passed on to \code{\link[=as.ab]{as.ab()}}} \item{...}{other arguments passed on to \code{\link[=as.ab]{as.ab()}}}
\item{data}{a \link{data.frame} of which the columns need to be renamed}
\item{property}{one of the column names of one of the \link{antibiotics} data set: \code{vector_or(colnames(antibiotics), sort = FALSE)}.}
\item{snake_case}{a \link{logical} to indicate whether the names should be in so-called \href{https://en.wikipedia.org/wiki/Snake_case}{snake case}: in lower case and all spaces/slashes replaced with an underscore (\verb{_})}
\item{only_first}{a \link{logical} to indicate whether only the first ATC code must be returned, with giving preference to J0-codes (i.e., the antimicrobial drug group)} \item{only_first}{a \link{logical} to indicate whether only the first ATC code must be returned, with giving preference to J0-codes (i.e., the antimicrobial drug group)}
\item{administration}{way of administration, either \code{"oral"} or \code{"iv"}} \item{administration}{way of administration, either \code{"oral"} or \code{"iv"}}
\item{open}{browse the URL using \code{\link[utils:browseURL]{utils::browseURL()}}} \item{open}{browse the URL using \code{\link[utils:browseURL]{utils::browseURL()}}}
\item{property}{one of the column names of one of the \link{antibiotics} data set: \code{vector_or(colnames(antibiotics), sort = FALSE)}.}
\item{data}{a \link{data.frame} of which the columns need to be renamed, or a \link{character} vector of column names}
\item{snake_case}{a \link{logical} to indicate whether the names should be in so-called \href{https://en.wikipedia.org/wiki/Snake_case}{snake case}: in lower case and all spaces/slashes replaced with an underscore (\verb{_})}
} }
\value{ \value{
\itemize{ \itemize{
@ -167,6 +167,11 @@ colnames(set_ab_names(example_isolates))
if (require("dplyr")) { if (require("dplyr")) {
example_isolates \%>\% example_isolates \%>\%
set_ab_names() set_ab_names()
# this does the same:
example_isolates \%>\%
rename_with(set_ab_names)
# set_ab_names() works with any AB property: # set_ab_names() works with any AB property:
example_isolates \%>\% example_isolates \%>\%
set_ab_names("atc") set_ab_names("atc")

18
man/translate.Rd
View File

@ -13,7 +13,7 @@ For language-dependent output of AMR functions, like \code{\link[=mo_name]{mo_na
\details{ \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: \url{https://github.com/msberends/AMR/blob/master/data-raw/translations.tsv}. This file will be read by all functions where a translated output can be desired, like all \code{\link[=mo_property]{mo_*}} functions (such as \code{\link[=mo_name]{mo_name()}}, \code{\link[=mo_gramstain]{mo_gramstain()}}, \code{\link[=mo_type]{mo_type()}}, etc.) and \code{\link[=ab_property]{ab_*}} functions (such as \code{\link[=ab_name]{ab_name()}}, \code{\link[=ab_group]{ab_group()}}, etc.). 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: \url{https://github.com/msberends/AMR/blob/master/data-raw/translations.tsv}. This file will be read by all functions where a translated output can be desired, like all \code{\link[=mo_property]{mo_*}} functions (such as \code{\link[=mo_name]{mo_name()}}, \code{\link[=mo_gramstain]{mo_gramstain()}}, \code{\link[=mo_type]{mo_type()}}, etc.) and \code{\link[=ab_property]{ab_*}} functions (such as \code{\link[=ab_name]{ab_name()}}, \code{\link[=ab_group]{ab_group()}}, etc.).
Currently supported languages are: Dutch, English, French, German, Italian, Portuguese and Spanish. Please note that currently not all these languages have translations available for all antimicrobial agents and colloquial microorganism names. Currently supported languages are: Danish, Dutch, English, French, German, Italian, Portuguese and Spanish. All these languages have translations available for all antimicrobial agents and colloquial microorganism names.
Please suggest your own translations \href{https://github.com/msberends/AMR/issues/new?title=Translations}{by creating a new issue on our repository}. Please suggest your own translations \href{https://github.com/msberends/AMR/issues/new?title=Translations}{by creating a new issue on our repository}.
\subsection{Changing the Default Language}{ \subsection{Changing the Default Language}{
@ -49,17 +49,17 @@ On our website \url{https://msberends.github.io/AMR/} you can find \href{https:/
mo_name("CoNS", language = "en") mo_name("CoNS", language = "en")
#> "Coagulase-negative Staphylococcus (CoNS)" #> "Coagulase-negative Staphylococcus (CoNS)"
# German # Danish
mo_name("CoNS", language = "de") mo_name("CoNS", language = "nl")
#> "Koagulase-negative Staphylococcus (KNS)" #> "Koagulase-negative stafylokokker (CoNS)"
# Dutch # Dutch
mo_name("CoNS", language = "nl") mo_name("CoNS", language = "nl")
#> "Coagulase-negatieve Staphylococcus (CNS)" #> "Coagulase-negatieve Staphylococcus (CNS)"
# Spanish # German
mo_name("CoNS", language = "es") mo_name("CoNS", language = "de")
#> "Staphylococcus coagulasa negativo (SCN)" #> "Koagulase-negative Staphylococcus (KNS)"
# Italian # Italian
mo_name("CoNS", language = "it") mo_name("CoNS", language = "it")
@ -68,4 +68,8 @@ mo_name("CoNS", language = "it")
# Portuguese # Portuguese
mo_name("CoNS", language = "pt") mo_name("CoNS", language = "pt")
#> "Staphylococcus coagulase negativo (CoNS)" #> "Staphylococcus coagulase negativo (CoNS)"
# Spanish
mo_name("CoNS", language = "es")
#> "Staphylococcus coagulasa negativo (SCN)"
} }

2
vignettes/welcome_to_AMR.Rmd
View File

@ -5,7 +5,7 @@ output:
toc: true toc: true
toc_depth: 3 toc_depth: 3
vignette: > vignette: >
%\VignetteIndexEntry{Welcome to the AMR package} %\VignetteIndexEntry{Welcome to the `AMR` package}
%\VignetteEncoding{UTF-8} %\VignetteEncoding{UTF-8}
%\VignetteEngine{knitr::rmarkdown} %\VignetteEngine{knitr::rmarkdown}
editor_options: editor_options: