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(v1.7.1.9070) Better WHONET support

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dr. M.S. (Matthijs) Berends 2021-12-13 10:18:28 +01:00
parent f90e27c1b0
commit 578e7dfee9
74 changed files with 20758 additions and 47402 deletions
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1
.gitignore vendored
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@ -26,3 +26,4 @@ data-raw/DSMZ_bactnames.xlsx
data-raw/country_analysis_url_token.R
data-raw/country_analysis2.R
data-raw/taxonomy.csv
data-raw/WHONET

5
DESCRIPTION
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@ -1,6 +1,6 @@
Package: AMR
Version: 1.7.1.9069
Date: 2021-12-12
Version: 1.7.1.9070
Date: 2021-12-13
Title: Antimicrobial Resistance Data Analysis
Description: Functions to simplify and standardise antimicrobial resistance (AMR)
data analysis and to work with microbial and antimicrobial properties by
@ -77,6 +77,7 @@ Suggests:
dplyr,
ggtext,
knitr,
progress,
readxl,
rmarkdown,
rvest,

1
NAMESPACE
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@ -75,6 +75,7 @@ S3method(c,mic)
S3method(c,mo)
S3method(c,rsi)
S3method(ceiling,mic)
S3method(close,progress_bar)
S3method(cos,mic)
S3method(cosh,mic)
S3method(cospi,mic)

7
NEWS.md
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@ -1,5 +1,5 @@
# `AMR` 1.7.1.9069
## <small>Last updated: 12 December 2021</small>
# `AMR` 1.7.1.9070
## <small>Last updated: 13 December 2021</small>
All functions in this package are now all considered to be stable. Updates to the AMR interpretation rules (such as by EUCAST and CLSI), the microbial taxonomy, and the antibiotic dosages will all be updated every 6 to 12 months from now on.
@ -11,7 +11,7 @@ All functions in this package are now all considered to be stable. Updates to th
### New
* Support for the CLSI 2021 guideline for interpreting MIC/disk diffusion values, which are incorporated in the `rsi_translation` data set
* Support for EUCAST Intrinsic Resistance and Unusual Phenotypes v3.3 (October 2021). This is now the default EUCAST guideline in the package (all older guidelines are still available) for `eucast_rules()`, `mo_intrinsic_resistant()` and `mdro()`. The `intrinsic_resistant` data set was also updated accordingly.
* Support for EUCAST Intrinsic Resistance and Unusual Phenotypes v3.3 (October 2021). This is now the default EUCAST guideline in the package (all older guidelines are still available) for `eucast_rules()`, `mo_is_intrinsic_resistant()` and `mdro()`. The `intrinsic_resistant` data set was also updated accordingly.
* Support for all antimicrobial drug (group) names and colloquial microorganism names in Danish, Dutch, English, French, German, Italian, Portuguese, Russian, Spanish and Swedish
* Function `set_ab_names()` to rename data set columns that resemble antimicrobial drugs. This allows for quickly renaming columns to official names, ATC codes, etc. Its second argument can be a tidyverse way of selecting:
```r
@ -47,6 +47,7 @@ All functions in this package are now all considered to be stable. Updates to th
* Fix for using selectors multiple times in one call (e.g., using them in `dplyr::filter()` and immediately after in `dplyr::select()`)
* Fix for using having multiple columns that are coerced to the same antibiotic agent
* Fixed for using `all()` or `any()` on antibiotic selectors in an R Markdown file
* Added the following antimicrobial agents that are now covered by the WHO: aztreonam/nacubactam (ANC), cefepime/nacubactam (FNC), exebacase (EXE), ozenoxacin (OZN), zoliflodacin (ZFD), manogepix (MGX), ibrexafungerp (IBX), and rezafungin (RZF). None of these agents have an ATC code yet.
* Fixed the Gram stain (`mo_gramstain()`) determination of the taxonomic class Negativicutes within the phylum of Firmicutes - they were considered Gram-positives because of their phylum but are actually Gram-negative. This impacts 137 taxonomic species, genera and families, such as *Negativicoccus* and *Veillonella*.
* Dramatic speed improvement for `first_isolate()`
* Fix to prevent introducing `NA`s for old MO codes when running `as.mo()` on them

16
R/aa_helper_functions.R
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@ -1096,14 +1096,30 @@ progress_ticker <- function(n = 1, n_min = 0, print = TRUE, ...) {
}
set_clean_class(pb, new_class = "txtProgressBar")
} else if (n >= n_min) {
# rely on the progress package if it is available - it has a more verbose output
progress_bar <- import_fn("progress_bar", "progress", error_on_fail = FALSE)
if (!is.null(progress_bar)) {
# so we use progress::progress_bar
# a close() method was also added, see below this function
pb <- progress_bar$new(format = "[:bar] :percent (:current/:total)",
total = n)
} else {
pb <- utils::txtProgressBar(max = n, style = 3)
pb$tick <- function() {
pb$up(pb$getVal() + 1)
}
}
pb
}
}
#' @method close progress_bar
#' @export
#' @noRd
close.progress_bar <- function(con, ...) {
con$terminate()
}
set_clean_class <- function(x, new_class) {
# return the object with only the new class and no additional attributes where possible
if (is.null(x)) {

2
R/ab.R
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@ -155,7 +155,7 @@ as.ab <- function(x, flag_multiple_results = TRUE, info = interactive(), ...) {
x[known_codes_atc],
function(x_) which(vapply(FUN.VALUE = logical(1),
AB_lookup$atc,
function(atc) x_ %in% atc)),
function(atc) x_ %in% atc))[1L],
USE.NAMES = FALSE)]
x_new[known_codes_cid] <- AB_lookup$ab[match(x[known_codes_cid], AB_lookup$cid)]
already_known <- known_names | known_codes_ab | known_codes_atc | known_codes_cid

2
R/ab_selectors.R
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@ -478,7 +478,7 @@ ab_select_exec <- function(function_name,
sort = FALSE, fn = function_name)
# untreatable drugs
if (only_treatable == TRUE) {
untreatable <- antibiotics[which(antibiotics$name %like% "-high|EDTA|polysorbate|macromethod|screening"), "ab", drop = TRUE]
untreatable <- antibiotics[which(antibiotics$name %like% "-high|EDTA|polysorbate|macromethod|screening|/nacubactam"), "ab", drop = TRUE]
if (any(untreatable %in% names(ab_in_data))) {
if (message_not_thrown_before(function_name, "ab_class", "untreatable", entire_session = TRUE)) {
warning_("Some agents in `", function_name, "()` were ignored since they cannot be used for treating patients: ",

3
R/data.R
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@ -246,13 +246,14 @@
#' - `method`\cr Either `r vector_or(rsi_translation$method)`
#' - `site`\cr Body site, e.g. "Oral" or "Respiratory"
#' - `mo`\cr Microbial ID, see [as.mo()]
#' - `rank_index`\cr Taxonomic rank index of `mo` from 1 (subspecies/infraspecies) to 5 (unknown microorganism)
#' - `ab`\cr Antibiotic ID, see [as.ab()]
#' - `ref_tbl`\cr Info about where the guideline rule can be found
#' - `disk_dose`\cr Dose of the used disk diffusion method
#' - `breakpoint_S`\cr Lowest MIC value or highest number of millimetres that leads to "S"
#' - `breakpoint_R`\cr Highest MIC value or lowest number of millimetres that leads to "R"
#' - `uti`\cr A [logical] value (`TRUE`/`FALSE`) to indicate whether the rule applies to a urinary tract infection (UTI)
#' @details The repository of this `AMR` package contains a file comprising this exact data set: <https://github.com/msberends/AMR/blob/main/data-raw/rsi_translation.txt>. This file **allows for machine reading EUCAST and CLSI guidelines**, which is almost impossible with the Excel and PDF files distributed by EUCAST and CLSI. The file is updated automatically.
#' @details The repository of this `AMR` package contains a file comprising this exact data set: <https://github.com/msberends/AMR/blob/main/data-raw/rsi_translation.txt>. This file **allows for machine reading EUCAST and CLSI guidelines**, which is almost impossible with the Excel and PDF files distributed by EUCAST and CLSI. The file is updated automatically and the `mo` and `ab` columns have been transformed to contain the full official names instead of codes.
#' @inheritSection AMR Reference Data Publicly Available
#' @inheritSection AMR Read more on Our Website!
#' @seealso [intrinsic_resistant]

57
R/mo.R
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@ -469,7 +469,7 @@ exec_as.mo <- function(x,
x_backup_untouched <- x
x <- strip_whitespace(x, dyslexia_mode)
# translate 'unknown' names back to English
if (any(x %like% "unbekannt|onbekend|desconocid|sconosciut|iconnu|desconhecid", na.rm = TRUE)) {
if (any(tolower(x) %like_case% "unbekannt|onbekend|desconocid|sconosciut|iconnu|desconhecid", na.rm = TRUE)) {
trns <- subset(TRANSLATIONS, pattern %like% "unknown")
langs <- LANGUAGES_SUPPORTED[LANGUAGES_SUPPORTED != "en"]
for (l in langs) {
@ -493,6 +493,11 @@ exec_as.mo <- function(x,
x_backup[x %like_case% "^(fungus|fungi)$"] <- "(unknown fungus)" # will otherwise become the kingdom
x_backup[x_backup_untouched == "Fungi"] <- "Fungi" # is literally the kingdom
# remove spp and species
x_backup <- gsub(" +(spp.?|ssp.?|sp.? |ss ?.?|subsp.?|subspecies|biovar |serovar |species)", " ", x_backup, perl = TRUE)
x_backup <- gsub("( spp?.?| ss |subsp.?|subspecies|biovar|serovar|species)", "", x_backup, perl = TRUE)
x_backup <- strip_whitespace(x_backup, dyslexia_mode)
# Fill in fullnames and MO codes directly
known_names <- tolower(x_backup) %in% MO_lookup$fullname_lower
x[known_names] <- MO_lookup[match(tolower(x_backup)[known_names], MO_lookup$fullname_lower), property, drop = TRUE]
@ -508,18 +513,14 @@ exec_as.mo <- function(x,
if (any(!already_known)) {
x_known <- x[already_known]
# remove spp and species
x <- gsub(" +(spp.?|ssp.?|sp.? |ss ?.?|subsp.?|subspecies|biovar |serovar |species)", " ", x)
x <- gsub("(spp.?|subsp.?|subspecies|biovar|serovar|species)", "", x)
x <- gsub("^([a-z]{2,4})(spe.?)$", "\\1", x, perl = TRUE) # when ending in SPE instead of SPP and preceded by 2-4 characters
x <- strip_whitespace(x, dyslexia_mode)
# when ending in SPE instead of SPP and preceded by 2-4 characters
x <- gsub("^([a-z]{2,4})(spe.?)$", "\\1", x, perl = TRUE)
x_backup_without_spp <- x
x_species <- paste(x, "species")
# translate to English for supported languages of mo_property
x <- gsub("(gruppe|groep|grupo|gruppo|groupe)", "group", x, perl = TRUE)
# no groups and complexes as ending
x <- gsub("(complex|group)$", "", x, perl = TRUE)
x <- gsub("(complex|group|serotype|serovar|serogroup)[^a-zA-Z]*$", "", x, perl = TRUE)
x <- gsub("(^|[^a-z])((an)?aero+b)[a-z]*", "", x, perl = TRUE)
x <- gsub("^atyp[a-z]*", "", x, perl = TRUE)
x <- gsub("(vergroen)[a-z]*", "viridans", x, perl = TRUE)
@ -546,12 +547,12 @@ exec_as.mo <- function(x,
# allow characters that resemble others = dyslexia_mode ----
if (dyslexia_mode == TRUE) {
x <- tolower(x)
x <- gsub("[iy]+", "[iy]+", x)
x <- gsub("(c|k|q|qu|s|z|x|ks)+", "(c|k|q|qu|s|z|x|ks)+", x)
x <- gsub("(ph|hp|f|v)+", "(ph|hp|f|v)+", x)
x <- gsub("(th|ht|t)+", "(th|ht|t)+", x)
x <- gsub("a+", "a+", x)
x <- gsub("u+", "u+", x)
x <- gsub("[iy]+", "[iy]+", x, perl = TRUE)
x <- gsub("(c|k|q|qu|s|z|x|ks)+", "(c|k|q|qu|s|z|x|ks)+", x, perl = TRUE)
x <- gsub("(ph|hp|f|v)+", "(ph|hp|f|v)+", x, perl = TRUE)
x <- gsub("(th|ht|t)+", "(th|ht|t)+", x, perl = TRUE)
x <- gsub("a+", "a+", x, perl = TRUE)
x <- gsub("u+", "u+", x, perl = TRUE)
# allow any ending of -um, -us, -ium, -icum, -ius, -icus, -ica, -ia and -a (needs perl for the negative backward lookup):
x <- gsub("(u\\+\\(c\\|k\\|q\\|qu\\+\\|s\\|z\\|x\\|ks\\)\\+)(?![a-z])",
"(u[s|m]|[iy][ck]?u[ms]|[iy]?[ck]?a)", x, perl = TRUE)
@ -561,9 +562,9 @@ exec_as.mo <- function(x,
"(u[s|m]|[iy][ck]?u[ms]|[iy]?[ck]?a)", x, perl = TRUE)
x <- gsub("(\\[iy\\]\\+a\\+)(?![a-z])",
"([iy]*a+|[iy]+a*)", x, perl = TRUE)
x <- gsub("e+", "e+", x)
x <- gsub("o+", "o+", x)
x <- gsub("(.)\\1+", "\\1+", x)
x <- gsub("e+", "e+", x, perl = TRUE)
x <- gsub("o+", "o+", x, perl = TRUE)
x <- gsub("(.)\\1+", "\\1+", x, perl = TRUE)
# allow multiplication of all other consonants
x <- gsub("([bdgjlnrw]+)", "\\1+", x, perl = TRUE)
# allow ending in -en or -us
@ -575,6 +576,8 @@ exec_as.mo <- function(x,
# allow au and ou after all above regex implementations
x <- gsub("a+[bcdfghjklmnpqrstvwxyz]?u+[bcdfghjklmnpqrstvwxyz]?", "(a+u+|o+u+)[bcdfghjklmnpqrstvwxyz]?", x, fixed = TRUE)
x <- gsub("o+[bcdfghjklmnpqrstvwxyz]?u+[bcdfghjklmnpqrstvwxyz]?", "(a+u+|o+u+)[bcdfghjklmnpqrstvwxyz]?", x, fixed = TRUE)
# correct for a forgotten Latin ae instead of e
x <- gsub("e+", "a*e+", x, fixed = TRUE)
}
x <- strip_whitespace(x, dyslexia_mode)
# make sure to remove regex overkill (will lead to errors)
@ -582,10 +585,9 @@ exec_as.mo <- function(x,
x <- gsub("?+", "?", x, fixed = TRUE)
x_trimmed <- x
x_trimmed_species <- paste(x_trimmed, "species")
x_trimmed_without_group <- gsub(" gro.u.p$", "", x_trimmed, perl = TRUE)
# remove last part from "-" or "/"
x_trimmed_without_group <- gsub("(.*)[-/].*", "\\1", x_trimmed_without_group)
x_trimmed_without_group <- gsub("(.*)[-/].*", "\\1", x_trimmed_without_group, perl = TRUE)
# replace space and dot by regex sign
x_withspaces <- gsub("[ .]+", ".* ", x, perl = TRUE)
x <- gsub("[ .]+", ".*", x, perl = TRUE)
@ -598,14 +600,12 @@ exec_as.mo <- function(x,
if (isTRUE(debug)) {
cat(paste0(font_blue("x"), ' "', x, '"\n'))
cat(paste0(font_blue("x_species"), ' "', x_species, '"\n'))
cat(paste0(font_blue("x_withspaces_start_only"), ' "', x_withspaces_start_only, '"\n'))
cat(paste0(font_blue("x_withspaces_end_only"), ' "', x_withspaces_end_only, '"\n'))
cat(paste0(font_blue("x_withspaces_start_end"), ' "', x_withspaces_start_end, '"\n'))
cat(paste0(font_blue("x_backup"), ' "', x_backup, '"\n'))
cat(paste0(font_blue("x_backup_without_spp"), ' "', x_backup_without_spp, '"\n'))
cat(paste0(font_blue("x_trimmed"), ' "', x_trimmed, '"\n'))
cat(paste0(font_blue("x_trimmed_species"), ' "', x_trimmed_species, '"\n'))
cat(paste0(font_blue("x_trimmed_without_group"), ' "', x_trimmed_without_group, '"\n'))
}
@ -914,20 +914,12 @@ exec_as.mo <- function(x,
d.x_withspaces_start_end,
e.x_withspaces_start_only,
f.x_withspaces_end_only,
g.x_backup_without_spp,
h.x_species,
i.x_trimmed_species) {
g.x_backup_without_spp) {
# FIRST TRY FULLNAMES AND CODES ----
# if only genus is available, return only genus
if (all(c(x[i], b.x_trimmed) %unlike_case% " ")) {
found <- lookup(fullname_lower %in% c(h.x_species, i.x_trimmed_species),
haystack = data_to_check)
if (!is.na(found)) {
x[i] <- found[1L]
return(x[i])
}
if (nchar(g.x_backup_without_spp) >= 6) {
found <- lookup(fullname_lower %like_case% paste0("^", unregex(g.x_backup_without_spp), "[a-z]+"),
haystack = data_to_check)
@ -1425,14 +1417,11 @@ exec_as.mo <- function(x,
d.x_withspaces_start_end = x_withspaces_start_end[i],
e.x_withspaces_start_only = x_withspaces_start_only[i],
f.x_withspaces_end_only = x_withspaces_end_only[i],
g.x_backup_without_spp = x_backup_without_spp[i],
h.x_species = x_species[i],
i.x_trimmed_species = x_trimmed_species[i])
g.x_backup_without_spp = x_backup_without_spp[i])
if (!empty_result(x[i])) {
next
}
# no results found: make them UNKNOWN ----
x[i] <- lookup(mo == "UNKNOWN", uncertainty = -1)
if (initial_search == TRUE) {

1
R/plot.R
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@ -146,6 +146,7 @@ plot.mic <- function(x,
legend_txt <- c(legend_txt, "Resistant")
legend_col <- c(legend_col, colours_RSI[1])
}
legend("top",
x.intersp = 0.5,
legend = translate_AMR(legend_txt, language = language),

13
R/rsi.R
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@ -836,11 +836,11 @@ exec_as.rsi <- function(method,
get_record <- get_record %pm>%
# be as specific as possible (i.e. prefer species over genus):
# pm_desc(uti) = TRUE on top and FALSE on bottom
pm_arrange(pm_desc(uti), pm_desc(nchar(mo))) # 'uti' is a column in data set 'rsi_translation'
pm_arrange(pm_desc(uti), rank_index) # 'uti' is a column in data set 'rsi_translation'
} else {
get_record <- get_record %pm>%
pm_filter(uti == FALSE) %pm>% # 'uti' is a column in rsi_translation
pm_arrange(pm_desc(nchar(mo)))
pm_arrange(rank_index)
}
get_record <- get_record[1L, , drop = FALSE]
@ -851,20 +851,15 @@ exec_as.rsi <- function(method,
} else if (method == "mic") {
new_rsi[i] <- quick_case_when(isTRUE(conserve_capped_values) & x[i] %like% "^<[0-9]" ~ "S",
isTRUE(conserve_capped_values) & x[i] %like% "^>[0-9]" ~ "R",
# start interpreting: EUCAST uses <= S and > R, CLSI uses <=S and >= R
# these basically call `<=.mic()` and `>=.mic()`:
x[i] <= get_record$breakpoint_S ~ "S",
guideline_coerced %like% "EUCAST" & x[i] > get_record$breakpoint_R ~ "R",
guideline_coerced %like% "CLSI" & x[i] >= get_record$breakpoint_R ~ "R",
x[i] >= get_record$breakpoint_R ~ "R",
# return "I" when not match the bottom or top
!is.na(get_record$breakpoint_S) & !is.na(get_record$breakpoint_R) ~ "I",
# and NA otherwise
TRUE ~ NA_character_)
} else if (method == "disk") {
new_rsi[i] <- quick_case_when(isTRUE(as.double(x[i]) >= as.double(get_record$breakpoint_S)) ~ "S",
# start interpreting: EUCAST uses >= S and < R, CLSI uses >=S and <= R
guideline_coerced %like% "EUCAST" &
isTRUE(as.double(x[i]) < as.double(get_record$breakpoint_R)) ~ "R",
guideline_coerced %like% "CLSI" &
isTRUE(as.double(x[i]) <= as.double(get_record$breakpoint_R)) ~ "R",
# return "I" when not match the bottom or top
!is.na(get_record$breakpoint_S) & !is.na(get_record$breakpoint_R) ~ "I",

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R/sysdata.rda
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data-raw/AMR_latest.tar.gz
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553
data-raw/DRGLST.txt
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@ -1,553 +0,0 @@
WHON5_CODE WHON4_CODE WHO_CODE DIN_CODE JAC_CODE USER_CODE ANTIBIOTIC GUIDELINES CLSI EUCST SFM SRGA BSAC DIN NEO AFA ABX_NUMBER POTENCY BETALACTAM CLASS SUBCLASS PROF_CLASS CLSI_ORDER HUMAN VETERINARY ANIMAL_GP WHO_IMPORT LOINCCOMP LOINCGEN LOINCDISK LOINCMIC LOINCETEST LOINCSLOW LOINCAFB LOINCSBT LOINCMLC CLSI21_DR CLSI21_DI CLSI21_DS CLSI21_MS CLSI21_MR CLSI20_DR CLSI20_DI CLSI20_DS CLSI20_MS CLSI20_MR CLSI19_DR CLSI19_DI CLSI19_DS CLSI19_MS CLSI19_MR CLSI18_DR CLSI18_DI CLSI18_DS CLSI18_MS CLSI18_MR CLSI17_DR CLSI17_DI CLSI17_DS CLSI17_MS CLSI17_MR CLSI16_DR CLSI16_DI CLSI16_DS CLSI16_MS CLSI16_MR CLSI15_DR CLSI15_DI CLSI15_DS CLSI15_MS CLSI15_MR CLSI14_DR CLSI14_DI CLSI14_DS CLSI14_MS CLSI14_MR CLSI13_DR CLSI13_DI CLSI13_DS CLSI13_MS CLSI13_MR CLSI12_DR CLSI12_DI CLSI12_DS CLSI12_MS CLSI12_MR CLSI11_DR CLSI11_DI CLSI11_DS CLSI11_MS CLSI11_MR CLSI10_DR CLSI10_DI CLSI10_DS CLSI10_MS CLSI10_MR EUCST21_DR EUCST21_DI EUCST21_DS EUCST21_MS EUCST21_MR EUCST20_DR EUCST20_DI EUCST20_DS EUCST20_MS EUCST20_MR EUCST19_DR EUCST19_DI EUCST19_DS EUCST19_MS EUCST19_MR EUCST18_DR EUCST18_DI EUCST18_DS EUCST18_MS EUCST18_MR EUCST17_DR EUCST17_DI EUCST17_DS EUCST17_MS EUCST17_MR EUCST16_DR EUCST16_DI EUCST16_DS EUCST16_MS EUCST16_MR EUCST15_DR EUCST15_DI EUCST15_DS EUCST15_MS EUCST15_MR EUCST14_DR EUCST14_DI EUCST14_DS EUCST14_MS EUCST14_MR EUCST13_DR EUCST13_DI EUCST13_DS EUCST13_MS EUCST13_MR ECV12_DR ECV12_DI ECV12_DS ECV12_MS ECV12_MR EUCST11_DR EUCST11_DI EUCST11_DS EUCST11_MS EUCST11_MR NEODK16_DR NEODK16_DI NEODK16_DS NEODK16_MS NEODK16_MR NEODK13_DR NEODK13_DI NEODK13_DS NEODK13_MS NEODK13_MR NEODK98_DR NEODK98_DI NEODK98_DS NEODK98_MS NEODK98_MR SFM20_DR SFM20_DI SFM20_DS SFM20_MS SFM20_MR SFM07_DR SFM07_DI SFM07_DS SFM07_MS SFM07_MR DIN04_DR DIN04_DI DIN04_DS DIN04_MS DIN04_MR CRG96_DR CRG96_DI CRG96_DS CRG96_MS CRG96_MR AFA00_DR AFA00_DI AFA00_DS AFA00_MS AFA00_MR MENS00_DR MENS00_DI MENS00_DS MENS00_MS MENS00_MR SRGA98_DR SRGA98_DI SRGA98_DS SRGA98_MS SRGA98_MR BSAC00_DR BSAC00_DI BSAC00_DS BSAC00_MS BSAC00_MR OTHER_DR OTHER_DI OTHER_DS OTHER_MS OTHER_MR
AMC AUG AMC AMC AMPC-CVA Amoxicillin/Clavulanic acid CLSI,EUCAST(Most bacteria) X X X X X 2 20/10μg X Beta-lactam+Inhibitors BL+INH 03 X Amoxicilli 18862-3 21-6 20-8 6977-3 25310-4 22-4 19-0 13 14-17 18 8 32 13 14-17 18 8 32 13 14-17 18 8 32 13 14-17 18 8 32 13 14-17 18 8 32 13 14-17 18 8 32 13 14-17 18 8 32 13 14-17 18 8 32 13 14-17 18 8 32 13 14-17 18 8 32 13 14-17 18 8 32 13 14-17 18 8 32 11 12 8 16 13 14-20 21 4 32 20 21-27 28 2 16 2 32 17 - 18 8 16
APX APX APX ASP ASPC Aspoxicillin 213 X Penicillins Ureidopenicillin PEN 01c
AMC AU2 AMC AMC AMPC-CVA Amoxicillin/Clavulanic acid BSAC,EUCAST(Haemophilus) X X X 306 2/1μg X Beta-lactam+Inhibitors BL+INH 03 X Amoxicilli 18862-3 21-6 20-8 6977-3 25310-4 22-4 19-0 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 4 32 2 16 2 32 8 16
BDP BDP BDP Brodimoprim 220 Folate pathway inhibitors FOLATE 12a
BUT BUC BUT Butoconazole 221 Antifungals FUNG 29
CAP CAP CPR Capreomycin 128 Antimycobacterials MYCO 28 Capreomyci 18872-2 57-0 56-2 23607-5 58-8 55-4
CRB CAR CB CAR Carbenicillin CLSI,BSAC X X 9 100μg X Penicillins Carboxypenicillin PEN 01d X Carbenicil 18873-0 61-2 60-4 41668-5 62-0 59-6 19 20-22 23 16 64 19 20-22 23 16 64 12 - 13 128 256
CAR CAM CAR CAM CRMN Carumonam 148 X Monobactams MONO 06
CAS CAS CAS Caspofungin CLSI,NEO X X 441 5μg Antifungals FUNG 29 Caspofungi 32378-2
CAC FAC CAC CAC Cefacetrile 149 30μg X Cephems Cephalosporin I CEPH1 04a
CEC CFC CEC CEC CCL Cefaclor CLSI,EUCAST X X X X X 10 30μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefaclor 18874-8 85-1 84-4 6986-4 86-9 83-6 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 2 16 1 8 4 32 13 14-34 35 1 16 34 - 35 1 2
BEK BEK AKM Bekanamycin 444 Aminoglycosides AG 09
SAM AS2 SAM AMS ABPC-SBT Ampicillin/Sulbactam DIN X 211 20/10μg X Beta-lactam+Inhibitors BL+INH 03 X Ampicillin 18865-6 33-1 32-3 6980-7 20374-5 23618-2 34-9 31-5 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 4 32 15 16-24 25 2 16
SAM AS3 SAM AMS ABPC-SBT Ampicillin/Sulbactam NEO X 334 30/30μg X Beta-lactam+Inhibitors BL+INH 03 X Ampicillin 18865-6 33-1 32-3 6980-7 20374-5 23618-2 34-9 31-5 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 4 32 2 16
AMR AMR Amprolium 405 Coccidiostats COCC 27
ANI ANI Anidulafungin 477 Antifungals FUNG 29
APL APA APL APL Apalcillin 144 X Penicillins Ureidopenicillin PEN 01c
APR AP1 APR Apramycin CLSI X 400 15μg Aminoglycosides AG 09 X Apramycin 23659-6 73653-8 73652-0
BAC BAC B BTC BC Bacitracin zinc CLSI X X 8 10units Polypeptides POLYPEP 26 X Bacitracin 18870-6 10868-8 6827-0 6983-1 14 - 15 2 4
AMX AX3 AMX AMX AMPC Amoxicillin NEO X 330 30μg X Penicillins Aminopenicillin PEN 01b X Amoxicilli 18861-5 17-4 16-6 6976-5 18-2 15-8 14 15-27 28 4 32 2 16 2 32 2 32
AMX AMX AMX AMX AMPC Amoxicillin 485 2μg X Penicillins Aminopenicillin PEN 01b X Amoxicilli 18861-5 17-4 16-6 6976-5 18-2 15-8 4 32 2 16 2 32 2 32
CPC CPC CEPM-CVA Cefepime/Clavulanic acid 432 X Beta-lactam+Inhibitors BL+INH 03 Cefepime+C 42353-3 42350-9 42351-7 35763-2
CCP CEP CFPN Cefcapene 152 5μg X Cephems Cephalosporin III CEPH3 04c
AMC AU5 AMC AMC AMPC-CVA Amoxicillin/Clavulanic acid 307 25/2μg X Beta-lactam+Inhibitors BL+INH 03 X Amoxicilli 18862-3 21-6 20-8 6977-3 25310-4 22-4 19-0 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 4 32 2 16 2 32 8 16
BES BES Besifloxacin CLSI X 486 Quinolones Fluoroquinolone FQ 11b X 73606-6 73651-2 73628-0
BIA BIA BIPM Biapenem CLSI X 218 X Penems Carbapenems CARB 07a Biapenem 41728-7 41666-9 41665-1 41667-7
BCZ BCZ BCZ Bicyclomycin (Bicozamycin) 219 Rho factor inhibitors RHO 27
AMX AMX AMX AMX AMPC Amoxicillin CLSI X X 82 30μg X Penicillins Aminopenicillin PEN 01b X Amoxicilli 18861-5 17-4 16-6 6976-5 18-2 15-8 13 14-20 21 4 32 2 16 2 32 2 32
CTL CTL CTZ Ceftezole 450 X Cephems Cephalosporin I CEPH1 04a
AMX AX1 AMX AMX AMPC Amoxicillin EUCAST X X X 210 10μg X Penicillins Aminopenicillin PEN 01b X Amoxicilli 18861-5 17-4 16-6 6976-5 18-2 15-8 8 16 4 32 15 16-22 23 2 16 2 32 2 32
CFR DRX CFR CFR CDX Cefadroxil EUCAST X X X X 70 30μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefadroxil 18875-5 65-3 64-6 66-1 63-8 11 12 16 32 11 12-17 18 8 64 13 14-29 30 1 16 24 - 25 1 2
RID RID CD CLO Cefaloridine 71 30μg X Cephems Cephalosporin I CEPH1 04a Cephalorid 18899-5 158-6 157-8 41684-2 156-0 1 2
MAN MAN MA CMD CMD Cefamandole CLSI,DIN,BSAC X X X X 11 30μg X Cephems Cephalosporin II CEPH2 04b X Cefamandol 18876-3 69-5 68-7 41669-3 70-3 67-9 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-21 22 8 64 4 16 4 32 19 - 20 8 16
MAN MA6 MA CMD CMD Cefamandole NEO X 338 60μg X Cephems Cephalosporin II CEPH2 04b X Cefamandol 18876-3 69-5 68-7 41669-3 70-3 67-9 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 64 4 16 4 32 8 16
APR APR APR Apramycin NEO X 145 40μg Aminoglycosides AG 09 Apramycin 23659-6
CNX CNX CNX CFX CMNX Cefminox 229 X Cephems Cephamycin CEPHAM 04e
CZO CFZ CZ CEZ CEZ Cefazolin CLSI,EUCAST,DIN X X X 12 30μg X Cephems Cephalosporin I CEPH1 04a X Cefazolin 18878-9 77-8 76-0 41670-1 78-6 75-2 19 20-22 23 2 8 19 20-22 23 2 8 19 20-22 23 2 8 19 20-22 23 2 8 19 20-22 23 2 8 19 20-22 23 2 8 19 20-22 23 2 8 19 20-22 23 2 8 19 20-22 23 2 8 19 20-22 23 2 8 19 20-22 23 2 8 14 15-17 18 1 4 19 20-21 22 4 16
CZO CZ6 CZ CEZ Cefazolin NEO X 339 60μg X Cephems Cephalosporin I CEPH1 04a X Cefazolin 18878-9 77-8 76-0 41670-1 78-6 75-2 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 4 16
CFB CFB CFB CBZ CBPZ Cefbuperazone 223 X Cephems Cephamycin CEPHAM 04e
CMZ CMZ CMZ CMT CMZ Cefmetazole CLSI X 99 30μg X Cephems Cephamycin CEPHAM 04e X Cefmetazol 18881-3 89-3 88-5 11575-8 90-1 87-7 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64
CCX CCX CCP Cefcapene pivoxil 445 X Cephems-Oral Cephalosporin CEPH-ORAL 05a
BAM BAM BAC BAPC Bacampicillin 147 X Penicillins Aminopenicillin PEN 01b Bacampicil 18869-8 49-7 48-9 50-5 47-1
AMC AU3 AMC AMC AMPC-CVA Amoxicillin/Clavulanic acid NEO X 331 30/15μg X Beta-lactam+Inhibitors BL+INH 03 X Amoxicilli 18862-3 21-6 20-8 6977-3 25310-4 22-4 19-0 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 14 15-27 28 4 32 2 16 2 32 8 16
AXS AXS AMC AMPC-SBT Amoxicillin/Sulbactam 3 X Beta-lactam+Inhibitors BL+INH 03
AMB AMB AB APH AMPH-B Amphotericin B CLSI,NEO X X 127 10μg Antifungals FUNG 29 Amphoteric 18863-1 25-7 24-0 6978-1 26-5 23-2 1 2
AMP AM2 AM AMP ABPC Ampicillin EUCAST(Other bacteria) X X X 309 2μg X Penicillins Aminopenicillin PEN 01b X Ampicillin 18864-9 29-9 28-1 6979-9 30-7 27-3 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 16 4 32 2 16 2 32 2 32 1 16 8 16
CRO CRO CRO CRO CTRX Ceftriaxone CLSI,EUCAST X X X X X X X 20 30μg X Cephems Cephalosporin III CEPH3 04c X Ceftriaxon 18895-3 142-0 141-2 6998-9 25367-4 143-8 140-4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 12 13-25 26 14 15-20 21 4 64 16 17-20 21 4 32 20 21-27 28 2 16 26 27-29 30 .5 2 27 - 28 1 2
AMP AM5 AM AMP ABPC Ampicillin BSAC X 308 25μg X Penicillins Aminopenicillin PEN 01b X Ampicillin 18864-9 29-9 28-1 6979-9 30-7 27-3 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 4 32 2 16 2 32 2 32 1 16 8 16
AMP AM1 AM AMP ABPC Ampicillin NEO X 332 2.5μg X Penicillins Aminopenicillin PEN 01b X Ampicillin 18864-9 29-9 28-1 6979-9 30-7 27-3 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 4 32 2 16 2 32 2 32 1 16 8 16
AMP AM3 AM AMP ABPC Ampicillin NEO X 333 33μg X Penicillins Aminopenicillin PEN 01b X Ampicillin 18864-9 29-9 28-1 6979-9 30-7 27-3 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 14 15-27 28 4 32 2 16 2 32 2 32 1 16 8 16
CRB CA5 CB CAR Carbenicillin NEO X 337 115μg X Penicillins Carboxypenicillin PEN 01d X Carbenicil 18873-0 61-2 60-4 41668-5 62-0 59-6 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 9 10-27 28 128 256
CTB BUT CTB CIB CETB Ceftibuten CLSI,EUCAST X X X X 140 30μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Ceftibuten 35779-8 35777-2 35778-0 6996-3 17 18-20 21 8 32 17 18-20 21 8 32 17 18-20 21 8 32 17 18-20 21 8 32 17 18-20 21 8 32 17 18-20 21 8 32 17 18-20 21 8 32 17 18-20 21 8 32 17 18-20 21 8 32 17 18-20 21 8 32 17 18-20 21 8 32 17 18-20 21 8 32 20 21 1 2 2 16 1 8 23 24-26 27 1 8 1 2
CFM FIX CFM CFI CFIX Cefixime CLSI,EUCAST X X X X X 69 5μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefixime 18880-5 81-0 80-2 35766-5 82-8 79-4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 16 17 1 2 1 4 1 4 19 - 20 1 2
CFM FI1 CFM CFI CFIX Cefixime DIN X X 186 10μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefixime 18880-5 81-0 80-2 35766-5 82-8 79-4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 21 22-24 25 1 4 21 22-25 26 1 4 1 2
CFM FI3 CFM CFI CFIX Cefixime NEO X 340 30μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefixime 18880-5 81-0 80-2 35766-5 82-8 79-4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 2
CZP CZP CZX-AP Ceftizoxime alapivoxil 447 X Cephems Cephalosporin III CEPH3 04c
CMX ME0 CMX CMX CMX Cefmenoxime DIN X 228 10μg X Cephems Cephalosporin III CEPH3 04c Cefmenoxim 32375-8 2 16 1 4
CTE CTE CH CTE Chlortetracycline 91 Tetracyclines TETRA 24 Chlortetra 18904-3 178-4 177-6 179-2 176-8
CIC CCL CI ACPC Ciclacillin 159 X Penicillins Aminopenicillin PEN 01b Cyclacilli 18913-4 210-5 209-7 211-3 208-9
CIN CI3 CIN CIN CINX Cinoxacin SRGA,NEO X X 191 30μg Quinolones Quinolone QUIN 11a X Cinoxacin 18905-0 182-6 181-8 183-4 180-0 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 15 16-19 20 8 32
CIN CIN CIN CIN CINX Cinoxacin CLSI X 25 100μg Quinolones Quinolone QUIN 11a X Cinoxacin 18905-0 182-6 181-8 183-4 180-0 14 15-18 19 16 64 14 15-18 19 16 64 14 15-18 19 16 64 14 15-18 19 16 64 14 15-18 19 16 64 14 15-18 19 16 64 14 15-18 19 16 64 14 15-18 19 16 64 14 15-18 19 16 64 14 15-18 19 16 64 14 15-18 19 16 64 14 15-18 19 16 64 8 32
CIP CI0 CIP CPFX Ciprofloxacin AFA,SRGA,NEO X X X 192 10μg Quinolones Fluoroquinolone FQ 11b X Ciprofloxa 18906-8 186-7 185-9 7002-9 20377-8 23621-6 187-5 184-2 0.25 1 0.25 1 0.25 1 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 12 13-23 24 1 4 1 4 1 4 18 19-26 27 .25 4 17 18-23 24 .125 2 1 2
ARB ARB ARB ABK Arbekacin 212 Aminoglycosides AG 09 Arbekacin 32373-3
CZD CZD CZD CZD Cefazedone 222 X Cephems Cephalosporin I CEPH1 04a
CIP CI5 CIP CPFX Ciprofloxacin NEO X 346 .5μg Quinolones Fluoroquinolone FQ 11b X Ciprofloxa 18906-8 186-7 185-9 7002-9 20377-8 23621-6 187-5 184-2 0.25 1 0.25 1 0.25 1 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 .25 4 .125 2 1 2
CIP CI1 CIP CPFX Ciprofloxacin BSAC X 314 1μg Quinolones Fluoroquinolone FQ 11b X Ciprofloxa 18906-8 186-7 185-9 7002-9 20377-8 23621-6 187-5 184-2 0.25 1 0.25 1 0.25 1 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 .25 4 .125 2 17 - 18 1 2
CIP CIP CIP CPFX Ciprofloxacin CLSI,EUCAST X X X X X 26 5μg Quinolones Fluoroquinolone FQ 11b X Ciprofloxa 18906-8 186-7 185-9 7002-9 20377-8 23621-6 187-5 184-2 21 22-25 26 0.25 1 21 22-25 26 0.25 1 21 22-25 26 0.25 1 15 16-20 21 1 4 15 16-20 21 1 4 15 16-20 21 1 4 15 16-20 21 1 4 15 16-20 21 1 4 15 16-20 21 1 4 15 16-20 21 1 4 15 16-20 21 1 4 15 16-20 21 1 4 18 19-21 22 0.5 2 21 22-24 25 .5 2 18 19-22 23 1 4 1 4 .25 4 .125 2 1 2
CLR CL3 CLR CLR CAM Clarithromycin NEO X 347 30μg Macrolides 14-Membered ring MACRO 17 X Clarithrom 18907-6 190-9 189-1 7003-7 20375-2 23619-0 191-7 188-3 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 12 13-21 22 2 8 .5 4 1 4 .5 1 .5 1
CTZ FAT CTZ CRI CFT Cefatrizine X 151 10μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a Cefatrizin 18877-1 73-7 72-9 74-5 71-1 14 15-21 22 2 16
CLR CLA CLR CLR CAM Clarithromycin CLSI,EUCAST X X X X X X 103 15μg Macrolides 14-Membered ring MACRO 17a X Clarithrom 18907-6 190-9 189-1 7003-7 20375-2 23619-0 191-7 188-3 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 16 17-20 21 2 8 .5 4 16 17-20 21 1 4 19 20-24 25 .5 1 .5 1
CLR CR2 CLR CLR CAM Clarithromycin X 410 2μg Macrolides 14-Membered ring MACRO 17 X Clarithrom 18907-6 190-9 189-1 7003-7 20375-2 23619-0 191-7 188-3 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 .5 4 1 4 .5 1 19 - 20 .5 1
CED RAD CED CED CED Cephradine NEO X 74 60μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a Cephradine 18902-7 170-1 169-3 171-9 168-5 8 64 4 32 2 4
CED RA3 CED CED CED Cephradine BSAC X X 408 30μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a Cephradine 18902-7 170-1 169-3 171-9 168-5 11 12-17 18 8 64 4 32 11 - 12 2 4
CTB BU1 CTB CIB CETB Ceftibuten DIN,BSAC X X X 189 10μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Ceftibuten 35779-8 35777-2 35778-0 6996-3 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 15 16-19 20 2 16 1 8 1 8 27 - 28 1 2
DIZ DIZ CDZ CFO CDZM Cefodizime DIN X 100 10μg X Cephems Cephalosporin III CEPH3 04c Cefodizime 18882-1 93-5 92-7 6988-0 94-3 91-9 15 16-17 18 4 16
CHL CH6 C CMP CP Chloramphenicol NEO X 345 60μg Phenicols PHEN 22 X Chloramphe 18903-5 174-3 173-5 7001-1 175-0 172-7 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 14 15-27 28 8 32 8 16 4 16 2 8 8 16 8 16
CMX MEN CMX CMX CMX Cefmenoxime X 85 30μg X Cephems Cephalosporin III CEPH3 04c Cefmenoxim 32375-8 2 16 1 4
CHL CHL C CMP CP Chloramphenicol CLSI,EUCAST X X X X X X X 24 30μg Phenicols PHEN 22 X Chloramphe 18903-5 174-3 173-5 7001-1 175-0 172-7 12 13-17 18 8 32 12 13-17 18 8 32 12 13-17 18 8 32 12 13-17 18 8 32 12 13-17 18 8 32 12 13-17 18 8 32 12 13-17 18 8 32 12 13-17 18 8 32 12 13-17 18 8 32 12 13-17 18 8 32 12 13-17 18 8 32 12 13-17 18 8 32 16 17 8 16 18 19-22 23 8 32 20 - 21 8 16 4 16 24 25-31 32 2 8 17 18-20 21 8 16 20 - 21 8 16
AVO AVO AVO Avoparcin 215 Glycopeptides Glycopeptide GLYCO 21a
FOX FOX FOX COX CFX Cefoxitin CLSI,EUCAST X X X X X X 17 30μg X Cephems Cephamycin CEPHAM 04e X Cefoxitin 18888-8 117-2 116-4 6991-4 25366-6 118-0 115-6 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-21 22 8 64 20 21-25 26 4 16 4 32 17 18-27 28 2 16 15 16-19 20 4 16 19 - 20 4 8
CPD PO1 CPD CPO CPDX Cefpodoxime 407 1μg X Cephems Cephalosporin III CEPH3 04c X Cefpodoxim 18890-4 121-4 120-6 6993-0 122-2 119-8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 1 4 1 4 1 2
AST AST AST AST ASTM Astromicin 146 Aminoglycosides AG 09
CPD PO5 CPD CPO CPDX Cefpodoxime BSAC X 311 5μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefpodoxim 18890-4 121-4 120-6 6993-0 122-2 119-8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 1 4 1 4 33 - 34 1 2
CLI CL1 CM CLI CLDM Clindamycin AFA,SRGA X X 193 15μg Lincosamides LINCO 15 X Clindamyci 18908-4 194-1 193-3 7005-2 195-8 192-5 .5 4 .5 4 .5 4 .5 4 .5 4 .5 4 .5 4 .5 4 .5 4 .5 4 .5 4 .5 4 2 4 1 8 1 8 17 18-23 24 1 4 19 20-27 28 .5 4 .5 1
CLI CL2 CM CLI CLDM Clindamycin NEO X 348 25μg Lincosamides LINCO 15 X Clindamyci 18908-4 194-1 193-3 7005-2 195-8 192-5 .5 4 .5 4 .5 4 .5 4 .5 4 .5 4 .5 4 .5 4 .5 4 .5 4 .5 4 .5 4 14 15-27 28 2 4 1 8 1 8 1 4 .5 4 .5 1
CLF CLF Clofazimine 482 Antimycobacterials MYCO 28
CTR CLO CTR CTR Clotrimazole NEO X 158 10μg Antifungals FUNG 29 Clotrimazo 18909-2 10653-4 10654-2
CLR CL5 CLR CLR CAM Clarithromycin X 409 5μg Macrolides 14-Membered ring MACRO 17 X Clarithrom 18907-6 190-9 189-1 7003-7 20375-2 23619-0 191-7 188-3 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 .5 4 1 4 .5 1 .5 1
CLA CLV CLA CLA CVA Clavulanic acid CLSI X 246 X Beta-lactamase inhibitors BL-INH 02 Clavulanat 41733-7 41686-7 41687-5 41685-9
CLX CLN CLN Clinafloxacin CLSI X 157 5μg Quinolones Fluoroquinolone FQ 11b X Clinafloxa 32376-6 35785-5 35786-3 7004-5
CHL CH1 C CMP CP Chloramphenicol BSAC,NEO X X 313 10μg Phenicols PHEN 22 X Chloramphe 18903-5 174-3 173-5 7001-1 175-0 172-7 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 16 4 16 2 8 8 16 8 16
CTT CTN CTT CTT CTT Cefotetan CLSI,BSAC X X X 16 30μg X Cephems Cephamycin CEPHAM 04e X Cefotetan 18887-0 113-1 112-3 6990-6 114-9 111-5 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-15 16 16 64 12 13-23 24 16 17-22 23 4 64 4 32 4 32 23 - 24 4 8
CTF FOT CTF CTM CTM Cefotiam DIN X X 86 30μg X Cephems Cephamycin CEPHAM 04e Cefotiam 32374-1 35772-3 35773-1 14 15-21 22 4 64 16 17-19 20 4 16
CHE CHE CTH CTM-HE Cefotiam hexetil X 235 10μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a 18 19-21 22 1 4
CHE CHE CTH CTM-HE Cefotiam hexetil DIN X 435 30μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a 20 21-25 26 1 8
CLI CLI CM CLI CLDM Clindamycin CLSI,EUCAST X X X X 27 2μg Lincosamides LINCO 15 X Clindamyci 18908-4 194-1 193-3 7005-2 195-8 192-5 14 15-20 21 .5 4 14 15-20 21 .5 4 14 15-20 21 .5 4 14 15-20 21 .5 4 14 15-20 21 .5 4 14 15-20 21 .5 4 14 15-20 21 .5 4 14 15-20 21 .5 4 14 15-20 21 .5 4 14 15-20 21 .5 4 14 15-20 21 .5 4 14 15-20 21 .5 4 14 - 15 2 4 1 8 1 8 1 4 .5 4 25 - 26 .5 1
FCT 5C1 FCT 5FC 5-FC 5-Fluorocytosine CLSI,NEO X X 328 10μg Antifungals FUNG 29 X 5-Fluorocy 18855-7 254-3 253-5 7014-4 255-0 252-7 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 8 16
FCT 5FC FCT 5-FC 5-Fluorocytosine CLSI,NEO X X 126 1μg Antifungals FUNG 29 X 5-Fluorocy 18855-7 254-3 253-5 7014-4 255-0 252-7 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 8 16
ACM ACM Acetylmidecamycin 114 Macrolides MACRO 17
ASP ASP Acetylspiramycin 113 Macrolides MACRO 17
CTO CTO CTO Cetocycline 245 Tetracyclines TETRA 24
ATM ATM ATM AZT AZT Aztreonam CLSI,EUCAST X X X X X X 7 30μg X Monobactams MONO 06 X Aztreonam 18868-0 45-5 44-8 6982-3 46-3 43-0 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 20 25 1 16 16 17-22 23 4 64 2 32 4 16 14 15-25 26 2 32 24 25-27 28 0.5 2 23 - 24 8 16
ATM AT1 ATM AZT AZT Aztreonam DIN X 217 10μg X Monobactams MONO 06 X Aztreonam 18868-0 45-5 44-8 6982-3 46-3 43-0 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 64 2 32 4 16 2 32 0.5 2 8 16
CID CID CID CNI Cefonicid CLSI X 13 30μg X Cephems Cephalosporin II CEPH2 04b X Cefonicid 18883-9 97-6 96-8 98-4 95-0 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32
CFP CFP CFP CPZ CPZ Cefoperazone CLSI X 14 75μg X Cephems Cephalosporin II CEPH2 04b X Cefoperazo 18884-7 101-6 100-8 35767-3 102-4 99-2 15 16-20 21 16 64 15 16-20 21 16 64 15 16-20 21 16 64 15 16-20 21 16 64 15 16-20 21 16 64 15 16-20 21 16 64 15 16-20 21 16 64 15 16-20 21 16 64 15 16-20 21 16 64 15 16-20 21 16 64 15 16-20 21 16 64 15 16-20 21 16 64 4 64 4 32 4 8
CFP CP1 CFP CPZ CPZ Cefoperazone DIN X 230 10μg X Cephems Cephalosporin II CEPH2 04b X Cefoperazo 18884-7 101-6 100-8 35767-3 102-4 99-2 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 4 64 14 15-20 21 4 32 4 8
CFP CF3 CFP CPZ CPZ Cefoperazone CLSI (Animal), SFM, BSAC X X X 187 30μg X Cephems Cephalosporin II CEPH2 04b X Cefoperazo 18884-7 101-6 100-8 35767-3 102-4 99-2 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 13 14-20 21 4 64 4 32 24 - 25 4 8
CFP CF6 CFP CPZ CPZ Cefoperazone NEO X 341 60μg X Cephems Cephalosporin II CEPH2 04b X Cefoperazo 18884-7 101-6 100-8 35767-3 102-4 99-2 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 4 64 4 32 4 8
CSL CFS CPS CPZ-SBT Cefoperazone/Sulbactam DIN X 101 30/15μg X Beta-lactam+Inhibitors BL+INH 03 35768-1 15 16-21 22
CND CND CND Ceforanide NEO X 231 30μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a Ceforanide 18885-4 105-7 104-0 106-5 103-2
CSE CSE Cefoselis 448 X Cephems Cephalosporin IV CEPH4 04d
AMK AMK AN AMK AMK Amikacin CLSI,EUCAST X X X X X X 1 30μg Aminoglycosides AG 09 X Amikacin 18860-7 13-3 12-5 6975-7 20373-7 23624-0 14-1 11-7 14 15-16 17 16 64 14 15-16 17 16 64 14 15-16 17 16 64 14 15-16 17 16 64 14 15-16 17 16 64 14 15-16 17 16 64 14 15-16 17 16 64 14 15-16 17 16 64 14 15-16 17 16 64 14 15-16 17 16 64 14 15-16 17 16 64 14 15-16 17 16 64 12 13-15 16 8 32 14 15-16 17 8 32 13 14-19 20 4 32 4 32 15 16-18 19 4 8 19 - 20 4 8
AMP AMP AM AMP ABPC Ampicillin CLSI,EUCAST(Enterobacterales) X X X X X X X 4 10μg X Penicillins Aminopenicillin PEN 01b X Ampicillin 18864-9 29-9 28-1 6979-9 30-7 27-3 13 14-16 17 8 32 13 14-16 17 8 32 13 14-16 17 8 32 13 14-16 17 8 32 13 14-16 17 8 32 13 14-16 17 8 32 13 14-16 17 8 32 13 14-16 17 8 32 13 14-16 17 8 32 13 14-16 17 8 32 13 14-16 17 8 32 13 14-16 17 8 32 11 12 8 16 13 14-18 19 4 32 14 15-21 22 2 16 2 32 8 9-21 22 2 32 11 12-29 30 1 16 17 - 18 8 16
SAM AMS SAM AMS ABPC-SBT Ampicillin/Sulbactam CLSI,EUCAST X X X 5 10/10μg X Beta-lactam+Inhibitors BL+INH 03 X Ampicillin 18865-6 33-1 32-3 6980-7 20374-5 23618-2 34-9 31-5 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 8 16 13 14-18 19 4 32 2 16
AVB AVB Avibactam CLSI X 496 X Beta-lactamase inhibitors BL-INH
AVI AVI AVI AVM Avilamycin 214 Everninomycins EVER 27 Avilamycin 35756-6 35754-1 35755-8
AZM AZI AZM AZM Azithromycin CLSI,EUCAST X X X X X X X 83 15μg Macrolides 15-Membered ring MACRO 17a X Azithromyc 18866-4 37-2 36-4 6981-5 23612-5 38-0 35-6 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 13 14-17 18 2 8 16 17-21 22 .5 8 17 18-20 21 2 8 19 20-23 24 1 4 19 20-22 23 .5 1 19 - 20 1 2
AZM AI3 AZM AZM Azithromycin NEO X 335 30μg Macrolides 15-Membered ring MACRO 17 X Azithromyc 18866-4 37-2 36-4 6981-5 23612-5 38-0 35-6 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 12 13-21 22 .5 8 2 8 1 4 .5 1 1 2
AZL AZL AZL AZL Azlocillin CLSI X X 6 75μg X Penicillins Ureidopenicillin PEN 01c X Azlocillin 18867-2 41-4 40-6 41661-0 42-2 39-8 17 - 18 64 128 17 - 18 64 128 17 - 18 64 128 17 18 64 128 17 18 64 128 17 18 64 128 17 18 64 128 17 18 64 128 17 18 64 128 17 18 64 128 17 18 64 128 17 18 64 128 12 13-18 19 16 128 2 32
AZL AZ3 AZL AZL Azlocillin AFA,DIN,NEO X X X 216 30μg X Penicillins Ureidopenicillin PEN 01c X Azlocillin 18867-2 41-4 40-6 41661-0 42-2 39-8 64 128 64 128 64 128 64 128 64 128 64 128 64 128 64 128 64 128 64 128 64 128 64 128 14 15-27 28 16 128 12 13-21 22 15 16-27 28 2 32
CDR DIN CDR CFD CFDN Cefdinir CLSI X 96 5μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefdinir 23636-4 35758-2 23637-2 35757-4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4
DIT DIT CDT CDTR Cefditoren CLSI X 153 5μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefditoren 35762-4 35759-0 35761-6 35760-8
DIX DIX CDTR-PI Cefditoren pivoxil 446 X Cephems-Oral Cephalosporin CEPH-ORAL 05a
FEP FEP FEP CEP CEPM Cefepime CLSI,EUCAST X X X X X 97 30μg X Cephems Cephalosporin IV CEPH4 04d X Cefepime 18879-7 8272-7 6644-9 6987-2 8273-5 6643-1 18 19-24 25 2 16 18 19-24 25 2 16 18 19-24 25 2 16 18 19-24 25 2 16 18 19-24 25 2 16 18 19-24 25 2 16 18 19-24 25 2 16 18 19-24 25 2 16 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 17 18-23 24 1 16 14 15-27 28 14 15-20 21 4 64 4 32 23 24-26 27 .5 2 31 - 32 2 4
FEP FE1 FEP CEP CEPM Cefepime DIN X 224 10μg X Cephems Cephalosporin IV CEPH4 04d X Cefepime 18879-7 8272-7 6644-9 6987-2 8273-5 6643-1 2 16 2 16 2 16 2 16 2 16 2 16 2 16 2 16 8 32 8 32 8 32 8 32 4 64 12 13-18 19 4 32 .5 2 2 4
CTX FTX CTX CTX CTX Cefotaxime CLSI,SRGA,BSAC X X X X X 15 30μg X Cephems Cephalosporin III CEPH3 04c X Cefotaxime 18886-2 109-9 108-1 6989-8 110-7 107-3 22 23-25 26 1 4 22 23-25 26 1 4 22 23-25 26 1 4 22 23-25 26 1 4 22 23-25 26 1 4 22 23-25 26 1 4 22 23-25 26 1 4 22 23-25 26 1 4 22 23-25 26 1 4 22 23-25 26 1 4 22 23-25 26 1 4 22 23-25 26 1 4 14 15-27 28 14 15-20 21 4 64 2 16 4 32 20 21-26 27 2 16 23 24-26 27 .5 2 29 - 30 1 2
CTX FT5 CTX CTX CTX Cefotaxime EUCAST X X X 406 5μg X Cephems Cephalosporin III CEPH3 04c X Cefotaxime 18886-2 109-9 108-1 6989-8 110-7 107-3 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 17 18-20 21 1 4 4 64 2 16 4 32 2 16 .5 2 1 2
CTX FT1 CTX CTX CTX Cefotaxime DIN X 232 10μg X Cephems Cephalosporin III CEPH3 04c X Cefotaxime 18886-2 109-9 108-1 6989-8 110-7 107-3 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 4 64 13 14-20 21 2 16 4 32 2 16 .5 2 1 2
CTC CTC CTX-CVA Cefotaxime/Clavulanic acid CLSI X 394 30/10μg X Beta-lactam+Inhibitors BL+INH 03 X Cefotaxime 35771-5 35769-9 35770-7 41671-9
CTS CTS CTS CTX-SBT Cefotaxime/Sulbactam DIN X 233 10/15μg X Beta-lactam+Inhibitors BL+INH 03 2 16
CTT CT1 CTT CTT CTT Cefotetan DIN X 234 10μg X Cephems Cephamycin CEPHAM 04e X Cefotetan 18887-0 113-1 112-3 6990-6 114-9 111-5 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 4 64 4 32 4 32 4 8
CAT FET CAT CFT CEMT Cefetamet CLSI X 98 10μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefetamet 32377-4 35764-0 35765-7 14 15-17 18 4 16 14 15-17 18 4 16 14 15-17 18 4 16 14 15-17 18 4 16 14 15-17 18 4 16 14 15-17 18 4 16 14 15-17 18 4 16 14 15-17 18 4 16 14 15-17 18 4 16 14 15-17 18 4 16 14 15-17 18 4 16 14 15-17 18 4 16
CPI CPI CFP CEMT-PI Cefetamet pivoxil DIN X 225 10μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a 19 20-25 26 1 8
CCL CET CCL Cefetecol (Cefcatacol) 226 X Cephems Cephalosporin IV CEPH4 04d
CZL CZL CZL Cefetrizole 227 X Cephems Cephalosporin-new CEPH? 04e
CFS SLD CFS CFS CFS Cefsulodin DIN X X 73 30μg X Cephems Cephalosporin III CEPH3 04c Cefsulodin 18892-0 129-7 128-9 130-5 127-1 14 15-27 28 13 14-21 22 8 64 18 19-28 29 4 32
CSU CSU CSU CSM Cefsumide 240 X Cephems Cephalosporin-new CEPH? 04e
CPT CPT Ceftaroline CLSI X 475 30μg X Cephems Cephalosporin CEPH 04b X 73605-8 73650-4 73627-2 19 20-22 23 .5 2 19 20-22 23 .5 2 19 20-22 23 .5 2 19 20-22 23 .5 2 19 20-22 23 .5 2 19 20-22 23 .5 2 19 20-22 23 .5 2 19 20-22 23 .5 2 19 20-22 23 .5 2
CPT CPT Ceftaroline EUCAST X X 507 5μg Cephems Cephalosporin CEPH 04b 73605-8 73650-4 73627-2
CPA CPA Ceftaroline/Avibactam CLSI X 497 30/15μg X Beta-lactam+Inhibitors BL+INH 03 X 73604-1 73649-6 73626-4
BAC BA4 B BTC BC Bacitracin zinc NEO X 336 40units Polypeptides POLYPEP 26 X Bacitracin 18870-6 10868-8 6827-0 6983-1 12 13-21 22 2 4
CZX ZOX CZX CZX CZX Ceftizoxime CLSI,BSAC X X X 19 30μg X Cephems Cephalosporin III CEPH3 04c X Ceftizoxim 18894-6 138-8 137-0 6997-1 20378-6 23622-4 139-6 136-2 21 22-24 25 1 4 21 22-24 25 1 4 21 22-24 25 1 4 21 22-24 25 1 4 21 22-24 25 1 4 21 22-24 25 1 4 21 22-24 25 1 4 21 22-24 25 1 4 21 22-24 25 1 4 21 22-24 25 1 4 21 22-24 25 1 4 21 22-24 25 1 4 14 15-20 21 4 64 2 16 29 - 30 1 2
CAZ CAZ CAZ CAZ CAZ Ceftazidime CLSI,SRGA,BSAC X X X X X 18 30μg X Cephems Cephalosporin III CEPH3 04c X Ceftazidim 18893-8 134-7 133-9 6995-5 135-4 132-1 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 17 18-20 21 4 16 14 15-27 28 14 15-20 21 4 64 4 32 4 32 19 20-25 26 2 16 23 24-26 27 2 8 27 - 28 2 4
CAZ CA1 CAZ CAZ CAZ Ceftazidime EUCAST X X X 241 10μg X Cephems Cephalosporin III CEPH3 04c X Ceftazidim 18893-8 134-7 133-9 6995-5 135-4 132-1 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 14 15-29 20 1 16 4 64 10 11-15 16 4 32 4 32 2 16 2 8 2 4
CZA CZA Ceftazidime/Avibactam CLSI X 498 30/20μg X Beta-lactam+Inhibitors BL+INH 03 X 73603-3 73648-8 73625-6 20 21 8 16 20 21 8 16 20 21 8 16 20 21 8 16
TIO TIO CFL Ceftiofur CLSI X 154 30μg X Cephems Cephalosporin III CEPH3 04c X Ceftiofur 23709-9 35780-6 35781-4 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8
CZX ZO5 CZX CZX CZX Ceftizoxime DIN X 244 5μg X Cephems Cephalosporin III CEPH3 04c X Ceftizoxim 18894-6 138-8 137-0 6997-1 20378-6 23622-4 139-6 136-2 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 4 64 11 12-16 17 2 16 1 2
CZT CZT Ceftolozane/Tazobactam CLSI,EUCAST X X X 506 30/10μg X Beta-lactam+Inhibitors BL+INH X 73602-5 73647-0 73624-9 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 2 8 2 8
CCV CCV CAZ-CVA Ceftazidime/Clavulanic acid CLSI X 242 30/4μg X Beta-lactam+Inhibitors BL+INH 03 X Ceftazidim 35776-4 35774-9 35775-6 42352-5
CEM CEM CEM CFM Cefteram 243 X Cephems Cephalosporin II CEPH2 04b
CPL CPL CFTM-PI Cefteram pivoxil 449 X Cephems-Oral Cephalosporin CEPH-ORAL 05a
CEC CF1 CEC CEC CCL Cefaclor X 185 10μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefaclor 18874-8 85-1 84-4 6986-4 86-9 83-6 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 15 16-21 22 2 16 1 8 4 32 1 16 1 2
CXM FR5 CXM CXM CXM Cefuroxime BSAC X 312 5μg X Cephems Cephalosporin II CEPH2 04b X Cefuroxime 18896-1 146-1 145-3 6999-7 147-9 144-6 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 64 4 16 4 32 2 16 8 16 1 32
AMK AK4 AN AMK AMK Amikacin NEO X 329 40μg Aminoglycosides AG 09 X Amikacin 18860-7 13-3 12-5 6975-7 20373-7 23624-0 14-1 11-7 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 14 15-25 26 8 32 4 32 4 32 4 8 4 8
CXM FRX CXM CXM CXM Cefuroxime CLSI,EUCAST X X X X X X X 21 30μg X Cephems Cephalosporin II CEPH2 04b X Cefuroxime 18896-1 146-1 145-3 6999-7 147-9 144-6 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 17 18 8 16 14 15-21 22 8 64 4 16 4 32 19 20-28 29 2 16 15 16-18 19 8 16 17 18-24 25 1 32
CXM FR6 CXM CXM CXM Cefuroxime NEO X 343 60μg X Cephems Cephalosporin II CEPH2 04b X Cefuroxime 18896-1 146-1 145-3 6999-7 147-9 144-6 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 14 15-27 28 8 64 4 16 4 32 2 16 8 16 1 32
CXA FRA CFA CXM-AX Cefuroxime axetil CLSI,EUCAST X X X X X 22 30μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefuroxime 35783-0 35782-2 20460-2 14 15-22 23 4 32 14 15-22 23 4 32 14 15-22 23 4 32 14 15-22 23 4 32 14 15-22 23 4 32 14 15-22 23 4 32 14 15-22 23 4 32 14 15-22 23 4 32 14 15-22 23 4 32 14 15-22 23 4 32 14 15-22 23 4 32 14 15-22 23 4 32 17 18 8 16 1 8 1 8 1 32 24 25-28 29 1 4 24 - 25 1 2
CXA FR1 CFA CXM-AX Cefuroxime axetil X 190 10μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefuroxime 35783-0 35782-2 20460-2 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 19 20-25 26 1 8 1 8 1 32 1 4 1 2
ZON ZON CFZ Cefuzonam 155 X Cephems Cephamycin CEPHAM 04e
LEX LEX CN CEX CEX Cephalexin EUCAST X X X X 121 30μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cephalexin 18897-9 150-3 149-5 35784-8 151-1 148-7 16 32 11 12-17 18 8 64 20 21-31 32 13 14-26 27 1 16 24 - 25 2 4
CEP KE6 CF CTN CET Cephalothin NEO X 344 66μg X Cephems Cephalosporin I CEPH1 04a X Cephalothi 18900-1 162-8 161-0 7000-3 163-6 160-2 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 14 15-27 28 8 64 4 32 2 16 1 16 1 2
CEP KEF CF CTN CET Cephalothin CLSI,EUCAST X X X X X 23 30μg X Cephems Cephalosporin I CEPH1 04a X Cephalothi 18900-1 162-8 161-0 7000-3 163-6 160-2 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 11 12-17 18 8 64 4 32 17 18-26 27 2 16 13 14-26 27 1 16 26 - 27 1 2
HAP FAP CP CAP Cephapirin X 150 30μg X Cephems Cephalosporin I CEPH1 04a Cephapirin 18901-9 166-9 165-1 167-7 164-4
GEH GE2 Gentamicin-High BSAC X 318 200μg Aminoglycosides AG 09 X Gentamicin 18929-0 7017-7 7018-5 35817-6 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 250 501 500 1000
GEH GEH Gentamicin-High CLSI X 137 120μg Aminoglycosides AG 09 X Gentamicin 18929-0 7017-7 7018-5 35817-6 6 7-9 10 512 513 6 7-9 10 512 513 6 7-9 10 512 513 6 7-9 10 512 513 6 7-9 10 512 513 6 7-9 10 512 513 6 7-9 10 512 513 6 7-9 10 512 513 6 7-9 10 512 513 6 7-9 10 512 513 6 7-9 10 512 513 6 7-9 10 512 513 250 501 500 1000
GEH G30 Gentamicin-High EUCAST X X 488 30μg Aminoglycosides AG 09 X Gentamicin 18929-0 7017-7 7018-5 35817-6 512 513 512 513 512 513 512 513 512 513 512 513 512 513 512 513 512 513 512 513 512 513 512 513 250 501 500 1000
GRX GRE GRE GPFX Grepafloxacin CLSI X 141 5μg Quinolones Fluoroquinolone FQ 11b X Grepafloxa 23638-0 35818-4 23639-8 21316-5 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4
GRI GRI GRI GRF Griseofulvin NEO X 257 25μg Antifungals FUNG 29
HAB HAB HAB Habekacin 258 Aminoglycosides AG 09
CLO CLX CX MCIPC Cloxacillin 122 5μg X Penicillins Penicillin (Stable) PEN-S 01e Cloxacilli 18910-0 198-2 197-4 199-0 196-6 4 8
FOX FO6 FOX COX CFX Cefoxitin NEO X 342 60μg X Cephems Cephamycin CEPHAM 04e X Cefoxitin 18888-8 117-2 116-4 6991-4 25366-6 118-0 115-6 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 14 15-27 28 8 64 4 16 4 32 2 16 4 16 4 8
FOX FOX FOX COX CFX Cefoxitin 439 10μg X Cephems Cephamycin CEPHAM 04e X Cefoxitin 18888-8 117-2 116-4 6991-4 25366-6 118-0 115-6 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32
ZOP ZOP COP CZOP Cefozopran 156 X Cephems-Oral Cephalosporin CEPH-ORAL 05a
CFZ MIZ CFZ CMZ Cefpimizole 236 X Cephems Cephalosporin III CEPH3 04c
CPM CPM CPM CPM Cefpiramide 237 X Cephems Cephalosporin III CEPH3 04c
CPO PIR CPO CPI CPR Cefpirome SRGA,NEO X X X 72 30μg X Cephems Cephalosporin III CEPH3 04c Cefpirome 18889-6 8276-8 8275-0 6992-2 6650-6 8274-3 14 15-27 28 14 15-20 21 4 64 2 16 23 24-26 27 .5 2 1 2
CPO PI2 CPO CPI CPR Cefpirome BSAC X 310 20μg X Cephems Cephalosporin III CEPH3 04c Cefpirome 18889-6 8276-8 8275-0 6992-2 6650-6 8274-3 4 64 2 16 .5 2 24 - 25 1 2
COL CO1 CS COL CL Colistin NEO X 349 150μg Lipopeptides LIPOPEP 16 X Colistin 18912-6 206-3 205-5 33333-6 207-1 204-8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 12 13-21 22 2 4 0.5 4 4 8
COL COL CS COL CL Colistin CLSI,EUCAST X X X 28 10μg Lipopeptides LIPOPEP 16 X Colistin 18912-6 206-3 205-5 33333-6 207-1 204-8 10 - 11 0.001 4 10 - 11 0.001 4 10 - 11 2 8 10 11 2 8 10 11 2 8 10 11 2 8 10 11 2 8 10 11 2 8 10 11 2 8 10 11 2 8 10 11 2 8 10 11 2 8 2 4 2 4 0.5 4 4 8
COL CO5 CS COL CL Colistin X 194 50μg Lipopeptides LIPOPEP 16 X Colistin 18912-6 206-3 205-5 33333-6 207-1 204-8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 14 - 15 2 4 0.5 4 4 8
COL CO2 CS COL CL Colistin BSAC X 315 25μg Lipopeptides LIPOPEP 16 X Colistin 18912-6 206-3 205-5 33333-6 207-1 204-8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 4 0.5 4 14 - 15 4 8
CYC CYC CSE CS Cycloserine 129 Antimycobacterials MYCO 28 Cycloserin 18914-2 214-7 213-9 23608-3 215-4 212-1
DAL DAL Dalbavancin CLSI,EUCAST X X X 467 Glycopeptides Lipoglycopeptide GLYCO 21b X Dalbavanci 41734-5 41688-3 41689-1 41690-9
DAN DFX DFX DAN Danofloxacin CLSI X 247 5μg Quinolones Fluoroquinolone FQ 11b X 73601-7 73646-2 73623-1
DAP DAP DPT Daptomycin CLSI X 395 30μg Lipopeptides LIPOPEP 16 X Daptomycin 35789-7 35787-1 35788-9 41691-7 1 1 1 1 1 1 1 1 1 1 1 1
DEM DEM DM DMCTC Demeclocycline 160 Tetracyclines TETRA 24 Demeclocyc 18915-9 218-8 217-0 7006-0 219-6 216-2
DKB DIB DKB DIB DKB Dibekacin X 29 10μg Aminoglycosides AG 09 13 14-15 16 4 16
DIC DIC DX DIC MDIPC Dicloxacillin DIN X 123 5μg X Penicillins Penicillin (Stable) PEN-S 01e Dicloxacil 18916-7 222-0 221-2 223-8 220-4 1 2
DIF DIF DIF Difloxacin CLSI X 248 10μg Quinolones Fluoroquinolone FQ 11b X Difloxacin 35792-1 35790-5 35791-3 17 18-20 21 .5 4 17 18-20 21 .5 4 17 18-20 21 .5 4 17 18-20 21 .5 4 17 18-20 21 .5 4 17 18-20 21 .5 4 17 18-20 21 .5 4 17 18-20 21 .5 4 17 18-20 21 .5 4 17 18-20 21 .5 4 17 18-20 21 .5 4 17 18-20 21 .5 4
DIR DIR DIR Dirithromycin CLSI X X 104 15μg Macrolides MACRO 17a X Dirithromy 35795-4 35793-9 35794-7 7007-8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-27 28 .125 8
CPD PO3 CPD CPO CPDX Cefpodoxime SRGA,NEO X X 188 30μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefpodoxim 18890-4 121-4 120-6 6993-0 122-2 119-8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 1 4 23 24-26 27 1 4 1 2
CPD POD CPD CPO CPDX Cefpodoxime CLSI,EUCAST X X X 87 10μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefpodoxim 18890-4 121-4 120-6 6993-0 122-2 119-8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 17 18-20 21 2 8 20 21 1 2 20 21-23 24 1 4 1 4 1 2
CPX CPX CPP CPDX-PR Cefpodoxime proxetil DIN X X 238 10μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a 20 21-23 24 1 4 18 19-24 25 1 8
CDC CDC CPDX-CVA Cefpodoxime/Clavulanic acid 429 X Beta-lactam+Inhibitors BL+INH 03 Cefpodoxim 41731-1 41680-0 41679-2 41678-4
CPR PRO CPR CPY Cefprozil CLSI X 102 30μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a X Cefprozil 18891-2 125-5 124-8 6994-8 126-3 123-0 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32
CEQ CEQ Cefquinome 481 X Cephems Cephalosporin ? CEPH? 04d
CRD CRD CRD CXD Cefroxadine 239 X Cephems Cephalosporin I CEPH1 04a
DOR DOR DRPM Doripenem CLSI,EUCAST X X X 451 10μg X Penems Carbapenems CARB 07a X Doripenem 60535-2 72893-1 56031-8 58711-3 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 17 18-23 24 1 8
DOX DOX DO DOX DOXY Doxycycline CLSI,SRGA,BSAC X X X X X 30 30μg Tetracyclines TETRA 24a X Doxycyclin 18917-5 226-1 225-3 7008-6 20379-4 23623-2 227-9 224-6 10 11-13 14 4 16 10 11-13 14 4 16 10 11-13 14 4 16 10 11-13 14 4 16 10 11-13 14 4 16 10 11-13 14 4 16 10 11-13 14 4 16 10 11-13 14 4 16 10 11-13 14 4 16 10 11-13 14 4 16 10 11-13 14 4 16 10 11-13 14 4 16 16 17-18 19 4 16 1 8 19 20-24 25 1 4 19 20-22 23 1 2 28 - 29 1 2
DOX DO8 DO DOX DOXY Doxycycline NEO X 350 80μg Tetracyclines TETRA 24 X Doxycyclin 18917-5 226-1 225-3 7008-6 20379-4 23623-2 227-9 224-6 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 1 8 1 4 1 2 1 2
ECO ECO ECO Econazole NEO X 351 10μg Antifungals FUNG 29 Econazole 25595-0 25637-0
ENX EN5 ENX ENO ENX Enoxacin DIN X X 249 5μg Quinolones Fluoroquinolone FQ 11b X Enoxacin 18918-3 230-3 229-5 41692-5 231-1 228-7 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 18 19-21 22 1 4 16 17-20 21 1 4
ENX ENX ENX ENO ENX Enoxacin CLSI X 31 10μg Quinolones Fluoroquinolone FQ 11b X Enoxacin 18918-3 230-3 229-5 41692-5 231-1 228-7 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 1 4 1 4
GRN GRN Garenoxacin CLSI X 491 5μg Quinolones Quinolone QUIN 11a X Garenoxaci 35813-5 35811-9 35812-7
GAT GA2 GAT GFLX Gatifloxacin 412 2μg Quinolones Fluoroquinolone FQ 11b X Gatifloxac 31038-3 31040-9 31036-7 31042-5 41494-6 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 1 4 1 4 1 2
GAT GAT GAT GFLX Gatifloxacin CLSI,DIN X X X 256 5μg Quinolones Fluoroquinolone FQ 11b X Gatifloxac 31038-3 31040-9 31036-7 31042-5 41494-6 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 14 15-17 18 2 8 17 18-20 21 1 4 17 18-22 23 1 4 1 2
GEM GEM GEM Gemifloxacin CLSI X 393 5μg Quinolones Fluoroquinolone FQ 11b X Gemifloxac 35816-8 35814-3 35815-0 41697-4 15 16-19 20 .25 1 15 16-19 20 .25 1 15 16-19 20 .25 1 15 16-19 20 .25 1 15 16-19 20 .25 1 15 16-19 20 .25 1 15 16-19 20 .25 1 15 16-19 20 .25 1 15 16-19 20 .25 1 15 16-19 20 .25 1 15 16-19 20 .25 1 15 16-19 20 .25 1 1 2
GEM GX1 GEM Gemifloxacin X 413 1μg Quinolones Fluoroquinolone FQ 11b X Gemifloxac 35816-8 35814-3 35815-0 41697-4 .25 1 .25 1 .25 1 .25 1 .25 1 .25 1 .25 1 .25 1 .25 1 .25 1 .25 1 .25 1 19 - 20 1 2
GEN GE1 GM GEN GM Gentamicin X 196 15μg Aminoglycosides AG 09 X Gentamicin 18928-2 268-3 267-5 7016-9 269-1 266-7 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 15 16-17 18 2 8 1 8 1 8 2 8 2 4 1 2
JOS JOS JM JOS JM Josamycin 115 100μg Macrolides MACRO 17 Josamycine 25597-6 41698-2 25702-2 41699-0
GEN GEN GM GEN GM Gentamicin CLSI,EUCAST X X X X X 35 10μg Aminoglycosides AG 09 X Gentamicin 18928-2 268-3 267-5 7016-9 269-1 266-7 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 13 14-16 17 2 8 4 16 14 15-20 21 1 8 1 8 2 8 2 4 19 - 20 1 2
GEN GE4 GM GEN GM Gentamicin NEO X 358 40μg Aminoglycosides AG 09 X Gentamicin 18928-2 268-3 267-5 7016-9 269-1 266-7 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 14 15-25 26 4 16 1 8 1 8 2 8 2 4 1 2
GEN GE3 GM GEN GM Gentamicin AFA,SRGA,EUCAST(Enterococcus) X X 197 30μg Aminoglycosides AG 09 X Gentamicin 18928-2 268-3 267-5 7016-9 269-1 266-7 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 1 8 1 8 18 19-21 22 2 8 17 18-20 21 2 4 1 2
GEH GH2 Gentamicin-High NEO X 359 250μg Aminoglycosides AG 09 X Gentamicin 18929-0 7017-7 7018-5 35817-6 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 250 501 500 1000
GEH GE5 Gentamicin-High X 198 500μg Aminoglycosides AG 09 X Gentamicin 18929-0 7017-7 7018-5 35817-6 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 500 501 10 11-16 17 250 501 500 1000
HET HET H Hetacillin 259 X Penicillins Aminopenicillin PEN 01b Hetacillin 18931-6 276-6 275-8 277-4 274-1
HYG HYG Hygromycin 414 Aminoglycosides AG 09
ICL ICL Iclaprim CLSI X 476 5μg Folate pathway inhibitors FOLATE 12a X 73597-7 73642-1 73619-9
IPM IMP IPM IMP Imipenem CLSI,EUCAST X X X X X X X 36 10μg X Penems Carbapenems CARB 07a X Imipenem 18932-4 280-8 279-0 7019-3 23613-3 281-6 278-2 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 13 14-15 16 4 16 14 15-20 21 2 16 16 17-21 22 4 16 19 20-22 23 2 8 2 16 22 23-25 26 4 16 16 17-22 23 1 16 22 - 23 4 8
IPM IM1 IPM IMP IPM/CS Imipenem NEO X 360 15μg X Penems Carbapenems CARB 07a X Imipenem 18932-4 280-8 279-0 7019-3 23613-3 281-6 278-2 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 12 13-25 26 4 16 4 16 4 8
IPE IPE Imipenem/EDTA 433 X Penems Carbapenems CARB 07a 35819-2
ISE ISE ISP ISE ISP Isepamicin X 75 30μg Aminoglycosides AG 09 Isepamicin 32381-6 35820-0 35821-8 14 15-16 17 8 32
ISO ISO ISL Isoconazole NEO X 165 10μg Antifungals FUNG 29
INH INH INH INH Isoniazid 132 Antimycobacterials MYCO 28 Isoniazid 18934-0 288-1 287-3 7020-1 20383-6 23947-5 289-9 286-5
ENR EN1 ENR Enrofloxacin NEO X 352 10μg Quinolones Fluoroquinolone FQ 11b Enrofloxac 23712-3 35797-0 35798-8 35796-2 .25 2 .25 2 .25 2 .25 2 .25 2 .25 2 .25 2 .25 2 .25 2 .25 2 .25 2 .25 2
ENR ENR ENR Enrofloxacin CLSI X 161 5μg Quinolones Fluoroquinolone FQ 11b X Enrofloxac 23712-3 35797-0 35798-8 35796-2 16 17-22 23 .25 2 16 17-22 23 .25 2 16 17-22 23 .25 2 16 17-22 23 .25 2 16 17-22 23 .25 2 16 17-22 23 .25 2 16 17-22 23 .25 2 16 17-22 23 .25 2 16 17-22 23 .25 2 16 17-22 23 .25 2 16 17-22 23 .25 2 16 17-22 23 .25 2
ENV ENV EVM Enviomycin (Tuberactinomycin) 452 Antimycobacterials MYCO 28
EPE EPE Eperozolid 250 Oxazolidinones OXAZOLID 20
EPP EPP EPP Epiroprim 251 Folate pathway inhibitors FOLATE 12a
ETP ETP ERT Ertapenem CLSI,EUCAST X X X 401 10μg X Penems Carbapenems CARB 07a X Ertapenem 35802-8 35799-6 35801-0 35800-2 18 19-21 22 .5 2 18 19-21 22 .5 2 18 19-21 22 .5 2 18 19-21 22 .5 2 18 19-21 22 .5 2 18 19-21 22 .5 2 18 19-21 22 .5 2 18 19-21 22 .5 2 18 19-21 22 .5 2 18 19-21 22 .5 2 19 20-22 23 .25 1 15 16-18 19 2 8 21 22-24 25 0.5 2 19 20-22 23 2 8
ERY ER5 E ERY EM Erythromycin BSAC X 316 5μg Macrolides MACRO 17 X Erythromyc 18919-1 234-5 233-7 7009-4 20380-2 23633-1 235-2 232-9 .5 8 .5 8 .5 8 .5 8 .5 8 .5 8 .5 8 .5 8 .5 8 .5 8 .5 8 .5 8 1 8 1 8 1 4 1 4 .5 1 19 - 20 .5 1
ERY ERY E ERY EM Erythromycin CLSI,EUCAST X X X X X X 32 15μg Macrolides 14-Membered ring MACRO 17a X Erythromyc 18919-1 234-5 233-7 7009-4 20380-2 23633-1 235-2 232-9 13 14-22 23 .5 8 13 14-22 23 .5 8 13 14-22 23 .5 8 13 14-22 23 .5 8 13 14-22 23 .5 8 13 14-22 23 .5 8 13 14-22 23 .5 8 13 14-22 23 .5 8 13 14-22 23 .5 8 13 14-22 23 .5 8 13 14-22 23 .5 8 13 14-22 23 .5 8 16 17-21 22 1 8 16 17-20 21 1 8 1 4 19 20-23 24 1 4 19 20-24 25 .5 1 .5 1
ERY ER7 E ERY EM Erythromycin NEO X 353 78μg Macrolides 14-Membered ring MACRO 17 X Erythromyc 18919-1 234-5 233-7 7009-4 20380-2 23633-1 235-2 232-9 .5 8 .5 8 .5 8 .5 8 .5 8 .5 8 .5 8 .5 8 .5 8 .5 8 .5 8 .5 8 14 15-27 28 1 8 1 8 1 4 1 4 .5 1 .5 1
ETH ETH EB EMB EB Ethambutol 130 Antimycobacterials MYCO 28 Ethambutol 18921-7 242-8 241-0 7010-2 20381-0 23625-7 243-6 240-2
ETI ETI EA ETH ETH Ethionamide 131 Antimycobacterials MYCO 28 Ethionamid 18922-5 41693-3 16099-4 7011-0 20382-8 23617-4
ETO ETO Ethopabate 411 Coccidiostats COCC 27
FAR FAR FAR FRPM Faropenem CLSI X 428 5μg X Penems Penem PENEM 07b X 73600-9 73645-4 73622-3
FDX FDX Fidaxomicin CLSI X 487 17 X 73599-3 73644-7 73621-5
FIN FIN Finafloxacin CLSI X 500 Quinolones Fluoroquinolone FQ 11b X 73598-5 73643-9 73620-7
FLA FLA Flavomycin 252 Flavophospholipols FLAVO 27
FLE FL1 FLE FLO FLRX Fleroxacin NEO X 354 10μg Quinolones Fluoroquinolone FQ 11b X Fleroxacin 32372-5 35806-9 25411-0 7012-8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 1 8
FLE FLE FLE FLO FLRX Fleroxacin CLSI,DIN X X 105 5μg Quinolones Fluoroquinolone FQ 11b X Fleroxacin 32372-5 35806-9 25411-0 7012-8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 15 16-18 19 2 8 12 13-23 24 14 15-21 22 1 8
FLO FLO FLO FLX FMOX Flomoxef 162 X Cephems Oxacephem OXACEPH 04f
FLR FLR FLF Florfenicol CLSI X 253 30μg Phenicols PHEN 22 X Florfenico 23740-4 35807-7 35808-5 14 15-18 19 2 8 14 15-18 19 2 8 14 15-18 19 2 8 14 15-18 19 2 8 14 15-18 19 2 8 14 15-18 19 2 8 14 15-18 19 2 8 14 15-18 19 2 8 14 15-18 19 2 8 14 15-18 19 2 8 14 15-18 19 2 8 14 15-18 19 2 8
FLC FLC FU FLU Flucloxacillin DIN X 163 X Penicillins Penicillin (Stable) PEN-S 01e 1 2 4 8
FLU FL2 FCA FLCZ Fluconazole CLSI,NEO X X 443 25μg Antifungals FUNG 29 X Fluconazol 18924-1 250-1 249-3 7013-6 251-9 248-5 14 15-18 19 8 64 14 15-18 19 8 64 14 15-18 19 8 64 14 15-18 19 8 64 14 15-18 19 8 64 14 15-18 19 8 64 14 15-18 19 8 64 14 15-18 19 8 64 14 15-18 19 8 64
FLM FLM UB FLM Flumequine X 88 30μg Quinolones Quinolone QUIN 11a 20 21-24 25 4 16
FFL FFL F-FLCZ Fosfluconazole 453 Antifungals FUNG 29
FOS FO7 FOS FOS FOM Fosfomycin NEO X 355 70μg Fosfomycins Fosfomycin FOSFO 13 X Fosfomycin 25596-8 35810-1 25653-7 35809-3 64 256 64 256 64 256 64 256 64 256 64 256 64 256 64 256 64 256 12 13-17 18 32 64 128 256
FOS FO2 FOS FOS FOM Fosfomycin BSAC 317 20μg Fosfomycins Fosfomycin FOSFO 13 X Fosfomycin 25596-8 35810-1 25653-7 35809-3 64 256 64 256 64 256 64 256 64 256 64 256 64 256 64 256 64 256 32 64 128 256
FOS FOS FOS FOS FOM Fosfomycin CLSI,EUCAST X X X X 254 200μg Fosfomycins Fosfomycin FOSFO 13 X Fosfomycin 25596-8 35810-1 25653-7 35809-3 12 13-15 16 64 256 12 13-15 16 64 256 12 13-15 16 64 256 12 13-15 16 64 256 12 13-15 16 64 256 12 13-15 16 64 256 12 13-15 16 64 256 12 13-15 16 64 256 12 13-15 16 64 256 32 64 32 64 19 - 20 128 256
FOS FO5 FOS FOS FOM Fosfomycin X 33 50μg Fosfomycins Fosfomycin FOSFO 13 X Fosfomycin 25596-8 35810-1 25653-7 35809-3 64 256 64 256 64 256 64 256 64 256 64 256 64 256 64 256 64 256 13 - 14 32 64 128 256
FMD FMD FMD Fosmidomycin 255 Fosfomycins Fosfomycin FOSFO 13
FRM FRM FY FRA Framycetin 164 30μg Aminoglycosides AG 09 Framycetin 18926-6 259-2 258-4 260-0 257-6
FRZ FRZ FUR Furazolidone 434 100μg Nitrofurans FURAN 18
FRZ FRZ FUR Furazolidone NEO X 356 50μg Nitrofurans FURAN 18
FUS FU5 FA FUS FA Fusidic acid AFA,SRGA X X 195 50μg Steroidals Fusidane FUSID 26 X Fusidate 18927-4 263-4 262-6 7015-1 264-2 261-8 2 32 1 2 32 - 33 .5 1 26 27-29 30 .5 1 1 2
FUS FUS FA FUS FA Fusidic acid EUCAST X X X X 34 10μg Steroidals Fusidane FUSID 26 X Fusidate 18927-4 263-4 262-6 7015-1 264-2 261-8 14 15-21 22 2 32 1 2 .5 1 .5 1 29 - 30 1 2
FUS F00 FA FUS FA Fusidic acid NEO X 357 100μg Steroidals Fusidane FUSID 26 X Fusidate 18927-4 263-4 262-6 7015-1 264-2 261-8 14 15-27 28 2 32 1 2 .5 1 .5 1 1 2
KAN KAN K KAN KM Kanamycin CLSI X X 37 30μg Aminoglycosides AG 09 X Kanamycin 18935-7 292-3 291-5 7022-7 23609-1 293-1 290-7 13 14-17 18 16 64 13 14-17 18 16 64 13 14-17 18 16 64 13 14-17 18 16 64 13 14-17 18 16 64 13 14-17 18 16 64 13 14-17 18 16 64 13 14-17 18 16 64 13 14-17 18 16 64 13 14-17 18 16 64 13 14-17 18 16 64 13 14-17 18 16 64 14 15-16 17 8 32 4 32
KAN KA1 K KM Kanamycin NEO X 361 100μg Aminoglycosides AG 09 X Kanamycin 18935-7 292-3 291-5 7022-7 23609-1 293-1 290-7 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 16 64 14 15-27 28 8 32 4 32
KAH KAH Kanamycin-High CLSI X X 138 1000μg Aminoglycosides AG 09 X Kanamycin. 18936-5 7023-5 7024-3 9 10-13 14 250 501
KAH KH5 Kanamycin-High NEO X 362 500μg Aminoglycosides AG 09 X Kanamycin. 18936-5 7023-5 7024-3 250 501
KET KET KET KCZ Ketoconazole NEO X 134 15μg Antifungals FUNG 29 Ketoconazo 18937-3 296-4 295-6 7025-0 297-2 294-9
KIT KIT LU LM Kitasamycin (Leucomycin) 116 Macrolides MACRO 17
LAS LAS Lasalocid 415 Combinations Coccidiostat/Ionophore OTHER 28
LEN LEN LEN LAPC Lenampicillin 454 X Penicillins Aminopenicillin PEN 01b
LVX LEV LEV LVFX Levofloxacin CLSI,EUCAST X X X X X 142 5μg Quinolones Fluoroquinolone FQ 11b X Levofloxac 20629-2 21367-8 20396-8 7026-8 16 17-20 21 0.5 2 16 17-20 21 0.5 2 16 17-20 21 0.5 2 13 14-16 17 2 8 13 14-16 17 2 8 13 14-16 17 2 8 13 14-16 17 2 8 13 14-16 17 2 8 13 14-16 17 2 8 13 14-16 17 2 8 13 14-16 17 2 8 13 14-16 17 2 8 18 19-21 22 1 4 16 17-19 20 1 4 2 4 2 4
LVX LE1 LEV LVFX Levofloxacin BSAC X 319 1μg Quinolones Fluoroquinolone FQ 11b X Levofloxac 20629-2 21367-8 20396-8 7026-8 0.5 2 0.5 2 0.5 2 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 1 8 2 4 19 - 20 2 4
LIN LIN L LIN LCM Lincomycin AFA X X 38 15μg Lincosamides LINCO 15 Lincomycin 18938-1 300-4 299-8 41700-6 301-2 298-0 16 17-20 21 2 16 17 18-23 24 1 4
LIN LI1 L LIN LCM Lincomycin NEO X 363 19μg Lincosamides LINCO 15 Lincomycin 18938-1 300-4 299-8 41700-6 301-2 298-0 14 15-27 28 2 16 1 4
LSP LSP Linco-spectin (lincomycin/spectinomycin) NEO X 364 15/200μg Combinations Lincosamide/Aminocyclitol OTHER 28
LNZ LNZ LIZ LZD Linezolid CLSI X X 260 30μg Oxazolidinones OXAZOLID 20 X Linezolid 29258-1 29255-7 29254-0 33332-8 41500-0 20 - 21 4 8 20 - 21 4 8 20 - 21 4 8 20 21 4 8 20 21 4 8 20 21 4 8 20 21 4 8 20 21 4 8 20 21 4 8 20 21 4 8 20 21 4 8 20 21 4 8 23 24-27 28 2 8 2 4
LNZ LN1 LIZ LZD Linezolid EUCAST X X X 416 10μg Oxazolidinones OXAZOLID 20 X Linezolid 29258-1 29255-7 29254-0 33332-8 41500-0 4 8 4 8 4 8 4 8 4 8 4 8 4 8 4 8 4 8 4 8 4 8 4 8 2 8 22 - 23 2 4
LFE LFE Linoprist-flopristin CLSI X 483 10μg Streptogramins STREPTOG 23 X 55292-7 55294-3 55293-5
LOM LOM LOM LOM LFLX Lomefloxacin CLSI X 107 10μg Quinolones Fluoroquinolone FQ 11b X Lomefloxac 18939-9 304-6 303-8 41701-4 305-3 302-0 18 19-21 22 2 8 18 19-21 22 2 8 18 19-21 22 2 8 18 19-21 22 2 8 18 19-21 22 2 8 18 19-21 22 2 8 18 19-21 22 2 8 18 19-21 22 2 8 18 19-21 22 2 8 18 19-21 22 2 8 18 19-21 22 2 8 18 19-21 22 2 8 1 4
LOM LO5 LOM LOM LFLX Lomefloxacin X 261 5μg Quinolones Fluoroquinolone FQ 11b X Lomefloxac 18939-9 304-6 303-8 41701-4 305-3 302-0 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 18 19-21 22 1 4
LOR LOR LOR LCBF Loracarbef CLSI,DIN X X 108 30μg X Cephems-Oral Carbacephem CEPH-ORAL 05b X Loracarbef 18940-7 308-7 307-9 7027-6 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 14 15-17 18 8 32 2 16 20 21-25 26 2 16 19 20-22 23 2 8
LOR LO1 LOR LCBF Loracarbef X 262 10μg X Cephems-Oral Cephalosporin CEPH-ORAL 05a Loracarbef 18940-7 308-7 307-9 7027-6 309-5 306-1 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 14 15-22 23 2 16 2 16 2 8
MAR MAR MAR Marbofloxacin CLSI X 468 5μg Quinolones Fluoroquinolone FQ 11b X 73596-9 73641-3 73618-1 14 15-19 20 1 4 14 15-19 20 1 4 14 15-19 20 1 4 14 15-19 20 1 4 14 15-19 20 1 4 14 15-19 20 1 4 14 15-19 20 1 4
MEC ME4 MEC MCL Mecillinam (Amdinocillin) NEO X 365 33μg X Penicillins Amidinopenicillin PEN 01f X Amdinocill 18859-9 9-1 8-3 7028-4 10-9 7-5 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 14 15-27 28 2 16 1 16 1 16 1 16
MEC MEC MEC MCL Mecillinam (Amdinocillin) CLSI,EUCAST X X X X X X 80 10μg X Penicillins Amidinopenicillin PEN 01f X Amdinocill 18859-9 9-1 8-3 7028-4 10-9 7-5 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 11 12-14 15 8 32 14 15 8 16 17 18-21 22 2 16 14 15-23 24 1 16 13 14-23 24 1 16 13 14-23 24 1 16
MEL MEL Meleumycin 117 Macrolides MACRO 17
MEM MER MEM MER MEPM Meropenem CLSI,EUCAST X X X X X X X 109 10μg X Penems Carbapenems CARB 07a X Meropenem 18943-1 6653-0 6652-2 7029-2 6654-8 6651-4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 19 20-22 23 1 4 13 14-15 16 4 16 15 16-21 22 2 16 16 17-19 20 14 15-19 20 4 16 13 14-21 22 2 16 16 17-22 23 4 16 19 20-28 29 .125 16 22 - 23 4 8
MES MES MES Mesulfamide 263 Folate pathway inhibitors FOLATE 12a 4 8
MET MET ME MET Methicillin CLSI,BSAC X X 39 5μg X Penicillins Penicillin (Stable) PEN-S 01e X Methicilli 18945-6 324-4 323-6 7030-0 325-1 322-8 9 10-13 14 8 16 9 10-13 14 8 16 9 10-13 14 8 16 9 10-13 14 8 16 9 10-13 14 8 16 9 10-13 14 8 16 9 10-13 14 8 16 9 10-13 14 8 16 9 10-13 14 8 16 9 10-13 14 8 16 9 10-13 14 8 16 9 10-13 14 8 16 13 - 14 4 8
MET ME2 ME MET Methicillin NEO X 366 29μg X Penicillins Penicillin (Stable) PEN-S 01e X Methicilli 18945-6 324-4 323-6 7030-0 325-1 322-8 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 14 15-27 28 4 8
MTP MTP MTP Metioprim 264 Folate pathway inhibitors FOLATE 12a
MXT MXT MXT Metioxate 265 Quinolones Quinolone QUIN 11a
MTR MTR MTR MTR Metronidazole SRGA X 76 4μg Nitroimidazoles IMIDAZ 19 Metronidaz 18946-4 328-5 327-7 7031-8 329-3 326-9 4 32 4 8 4 16
MTR MT1 MTR MTR Metronidazole NEO X X 367 16μg Nitroimidazoles IMIDAZ 19 X Metronidaz 18946-4 328-5 327-7 7031-8 329-3 326-9 20 - 21 4 32 4 8 4 16
MTR MTR MTR MTR Metronidazole 430 5μg Nitroimidazoles IMIDAZ 19 X Metronidaz 18946-4 328-5 327-7 7031-8 329-3 326-9 4 32 4 8 4 16
MTR ME1 MTR MTR Metronidazole EUCAST X X 199 10μg Nitroimidazoles IMIDAZ 19 X Metronidaz 18946-4 328-5 327-7 7031-8 329-3 326-9 4 32 4 8 4 16
MEZ MEZ MZ MZL Mezlocillin CLSI,BSAC X X X 40 75μg X Penicillins Ureidopenicillin PEN 01c X Mezlocilli 18947-2 332-7 331-9 41702-2 333-5 330-1 17 18-20 21 16 128 17 18-20 21 16 128 15 16-20 21 8 64 4 32 4 8 21 - 22 16 32
MEZ ME3 MZ MZL Mezlocillin DIN X 266 30μg X Penicillins Ureidopenicillin PEN 01c X Mezlocilli 18947-2 332-7 331-9 41702-2 333-5 330-1 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 8 64 16 17-22 23 4 32 4 8 16 32
MSU MSU MZS Mezlocillin/Sulbactam DIN X 267 30/15μg X Beta-lactam+Inhibitors BL+INH 03 16 17-21 22 4 32
MIF MIF Micafungin CLSI X 455 10μg Antifungals FUNG 29
MCZ MCZ MCZ MCZ MCZ Miconazole NEO X 268 10μg Antifungals FUNG 29 Miconazole 25607-3 25722-0
MCR MCR MCR MCR MCR Micronomicin 269 Aminoglycosides AG 09
MID MID MID MDM Midecamycin 118 100μg Macrolides MACRO 17
MIL MIL MIL Miloxacin 270 Quinolones Quinolone QUIN 11a
MNO MIN MNO MNO MINO Minocycline CLSI,EUCAST X X X 41 30μg Tetracyclines TETRA 24a X Minocyclin 18948-0 336-8 335-0 7032-6 337-6 334-3 12 13-15 16 4 16 12 13-15 16 4 16 12 13-15 16 4 16 12 13-15 16 4 16 12 13-15 16 4 16 12 13-15 16 4 16 12 13-15 16 4 16 12 13-15 16 4 16 12 13-15 16 4 16 12 13-15 16 4 16 12 13-15 16 4 16 12 13-15 16 4 16 16 17-18 19 4 16 1 8
MNO MI8 MNO MNO MINO Minocycline NEO X 368 80μg Tetracyclines TETRA 24 X Minocyclin 18948-0 336-8 335-0 7032-6 337-6 334-3 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 1 8
MON MON Monensin sodium 417 Combinations Coccidiostat/Ionophore OTHER 28
MOX MOX MOX LMO LMOX Moxalactam (Latamoxef) CLSI X X 42 30μg X Cephems Oxacephem OXACEPH 04f X Moxalactam 18950-6 344-2 343-4 41703-0 345-9 342-6 14 15-22 23 8 64 14 15-22 23 8 64 14 15-22 23 8 64 14 15-22 23 8 64 14 15-22 23 8 64 14 15-22 23 8 64 14 15-22 23 8 64 14 15-22 23 8 64 14 15-22 23 8 64 14 15-22 23 8 64 14 15-22 23 8 64 14 15-22 23 8 64 16 17-22 23 4 64
MFX MF1 MOX MFLX Moxifloxacin X 418 1μg Quinolones Fluoroquinolone FQ 11b X Moxifloxac 31039-1 31041-7 31037-5 31043-3 41502-6 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 1 4 1 4 19 - 20 1 2
MFX MFX MOX MFLX Moxifloxacin CLSI,EUCAST X X X X X 392 5μg Quinolones Fluoroquinolone FQ 11b X Moxifloxac 31039-1 31041-7 31037-5 31043-3 41502-6 20 21-23 24 .5 2 20 21-23 24 .5 2 20 21-23 24 .5 2 20 21-23 24 .5 2 20 21-23 24 .5 2 20 21-23 24 .5 2 20 21-23 24 .5 2 20 21-23 24 .5 2 20 21-23 24 .5 2 20 21-23 24 .5 2 20 21-23 24 .5 2 20 21-23 24 .5 2 16 17-19 20 0.5 2 20 21-23 24 .5 2 18 19-21 22 1 4 1 2
MUP MUP MUP MUP Mupirocin CLSI,NEO X X 124 10μg Pseudomonic acids PSEUDOM 27 X Mupirocin 20389-3 35822-6 35823-4 7033-4 19 - 20 2 4 8
MUP MU5 MUP MUP Mupirocin BSAC X X 419 5μg Pseudomonic acids PSEUDOM 27 X Mupirocin 20389-3 35822-6 35823-4 7033-4 19 2 21 - 22 4 8
NAD NAD NDFX Nadifloxacin 456 Quinolones Fluoroquinolone FQ 11b
NAF NAF NF NCL Nafcillin CLSI X 43 1μg X Penicillins Penicillin (Stable) PEN-S 01e X Nafcillin 18951-4 348-3 347-5 41704-8 349-1 346-7 10 11-12 13 2 4 10 11-12 13 2 4 10 11-12 13 2 4 10 11-12 13 2 4 10 11-12 13 2 4 10 11-12 13 2 4 10 11-12 13 2 4 10 11-12 13 2 4 10 11-12 13 2 4 10 11-12 13 2 4 10 11-12 13 2 4 10 11-12 13 2 4
NAL NAL NA NAL NA Nalidixic acid CLSI,EUCAST X X X X 44 30μg Quinolones Quinolone QUIN 11a X Nalidixate 18952-2 352-5 351-7 7034-2 353-3 350-9 13 14-18 19 16 32 13 14-18 19 16 32 13 14-18 19 16 32 13 14-18 19 16 32 13 14-18 19 16 32 13 14-18 19 16 32 13 14-18 19 16 32 13 14-18 19 16 32 13 14-18 19 16 32 13 14-18 19 16 32 13 14-18 19 16 32 13 14-18 19 16 32 15 16 16 32 14 15-19 20 8 32 14 - 15 16 32 15 16-19 20 8 32
NAL NA1 NA NAL NA Nalidixic acid NEO X 369 130μg Quinolones Quinolone QUIN 11a X Nalidixate 18952-2 352-5 351-7 7034-2 353-3 350-9 16 32 16 32 16 32 16 32 16 32 16 32 16 32 16 32 16 32 16 32 16 32 16 32 14 15-27 28 8 32 16 32
NAR NAR Narasin 402 Combinations Coccidiostat/Ionophore OTHER 28
NEO NEO N NEO FRM Neomycin CLSI X 45 30μg Aminoglycosides AG 09 X Neomycin 18953-0 356-6 355-8 41705-5 357-4 354-1
NEO NE0 NEO FRM Neomycin X 420 10μg Aminoglycosides AG 09 X Neomycin 18953-0 356-6 355-8 41705-5 357-4 354-1 16 - 17
NEO NE2 N NEO FRM Neomycin NEO X 370 120μg Aminoglycosides AG 09 X Neomycin 18953-0 356-6 355-8 41705-5 357-4 354-1 14 15-27 28
NET NET NET NET NTL Netilmicin CLSI,SRGA X X X X 46 30μg Aminoglycosides AG 09 X Netilmicin 18954-8 360-8 359-0 7035-9 361-6 358-2 12 13-14 15 8 32 12 13-14 15 8 32 12 13-14 15 8 32 12 13-14 15 8 32 12 13-14 15 8 32 12 13-14 15 8 32 12 13-14 15 8 32 12 13-14 15 8 32 12 13-14 15 8 32 12 13-14 15 8 32 12 13-14 15 8 32 12 13-14 15 8 32 18 19-20 21 2 8 1 8 2 16 18 19-21 22 2 8 17 18-20 21 2 4 1 2
NET NE1 NET NET NTL Netilmicin EUCAST X X X X 271 10μg Aminoglycosides AG 09 X Netilmicin 18954-8 360-8 359-0 7035-9 361-6 358-2 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 11 12-14 15 2 8 4 16 16 17-21 22 1 8 2 16 2 8 2 4 24 - 25 1 2
NET NE4 NET NET NTL Netilmicin NEO X 371 40μg Aminoglycosides AG 09 X Netilmicin 18954-8 360-8 359-0 7035-9 361-6 358-2 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 14 15-25 26 4 16 1 8 2 16 2 8 17 18-20 21 2 4 1 2
NIC NIC Nicarbazin 421 Coccidiostats COCC 27
NIF NIF NIF Nifuroquine 272 Quinolones Quinolone QUIN 11a
NTZ NTZ Nitazoxanide CLSI X 492 Thiazolides THIAZ 30 73595-1 73640-5 73617-3
NIT FU0 FT NFT Nitrofurantoin BSAC 327 50μg Nitrofurans FURAN 18 X Nitrofuran 18955-5 364-0 363-2 7036-7 365-7 362-4 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 256 64 512 32 64 16 32 32 64 32 64
NIT FU6 FT NFT Nitrofurantoin NEO X 372 260μg Nitrofurans FURAN 18 X Nitrofuran 18955-5 364-0 363-2 7036-7 365-7 362-4 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 14 15-27 28 32 256 64 512 32 64 16 32 32 64 32 64
NIT FU1 FT NFT Nitrofurantoin EUCAST X X X X X 200 100μg Nitrofurans FURAN 18 X Nitrofuran 18955-5 364-0 363-2 7036-7 365-7 362-4 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 10 11 64 128 32 256 10 11-15 16 64 512 32 64 18 - 19 16 32 13 14-16 17 32 64 32 64
NIT FUR FT NFT Nitrofurantoin CLSI X X 47 300μg Nitrofurans FURAN 18 X Nitrofuran 18955-5 364-0 363-2 7036-7 365-7 362-4 14 15-16 17 32 128 14 15-16 17 32 128 14 15-16 17 32 128 14 15-16 17 32 128 14 15-16 17 32 128 14 15-16 17 32 128 14 15-16 17 32 128 14 15-16 17 32 128 14 15-16 17 32 128 14 15-16 17 32 128 14 15-16 17 32 128 14 15-16 17 32 128 13 14-16 17 32 256 64 512 32 64 16 32 32 64 32 64
NIT FU2 FT NFT Nitrofurantoin BSAC X 320 200μg Nitrofurans FURAN 18 X Nitrofuran 18955-5 364-0 363-2 7036-7 365-7 362-4 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 256 64 512 32 64 16 32 32 64 19 - 20 32 64
NIZ NIZ FC Nitrofurazone 166 Nitrofurans FURAN 18
NTR NIT NI NIT Nitroxoline X 89 20μg Quinolones Quinolone QUIN 11a Nitroxolin 25608-1 25723-8 11 12-29 30 1 64
NOR NOR NOR NOR NFLX Norfloxacin CLSI,EUCAST X X X X X 48 10μg Quinolones Fluoroquinolone FQ 11b X Norfloxaci 18956-3 368-1 367-3 7037-5 41504-2 369-9 366-5 12 13-16 17 4 16 12 13-16 17 4 16 12 13-16 17 4 16 12 13-16 17 4 16 12 13-16 17 4 16 12 13-16 17 4 16 12 13-16 17 4 16 12 13-16 17 4 16 12 13-16 17 4 16 18 19-21 22 0.5 2 12 13-25 26 1 4 23 24-26 27 1 4 1 4 17 18-23 24 .5 2 4 8
NOR NO5 NOR NOR NFLX Norfloxacin X 201 5μg Quinolones Fluoroquinolone FQ 11b X Norfloxaci 18956-3 368-1 367-3 7037-5 41504-2 369-9 366-5 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 21 22-24 25 .5 2 1 4 1 4 .5 2 4 8
NOR NO2 NOR NOR NFLX Norfloxacin BSAC X 321 2μg Quinolones Fluoroquinolone FQ 11b X Norfloxaci 18956-3 368-1 367-3 7037-5 41504-2 369-9 366-5 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 1 4 1 4 1 4 .5 2 16 - 17 4 8
NVA NVA Norvancomycin 119 Glycopeptides Glycopeptide GLYCO 21a
NOV NOV NB Novobiocin CLSI,NEO X X 49 5μg Polypeptides Coumarin POLYPEP 26 X Novobiocin 18957-1 372-3 371-5 41706-3 373-1 370-7 15 - 16
NOV NO1 NB Novobiocin NEO X 373 100μg Polypeptides Coumarin POLYPEP 26 X Novobiocin 18957-1 372-3 371-5 41706-3 373-1 370-7 12 13-21 22
NYS NYS NY NYS NYS Nystatin NEO X 273 50μg Antifungals FUNG 29 Nystatin 18958-9 35824-2 10697-1 10698-9
OFX OFL OFX OFLX Ofloxacin CLSI,EUCAST X X X X 50 5μg Quinolones Fluoroquinolone FQ 11b X Ofloxacin 18959-7 376-4 375-6 7038-3 20384-4 23948-3 377-2 374-9 12 13-15 16 2 8 12 13-15 16 2 8 12 13-15 16 2 8 12 13-15 16 2 8 12 13-15 16 2 8 12 13-15 16 2 8 12 13-15 16 2 8 12 13-15 16 2 8 12 13-15 16 2 8 12 13-15 16 2 8 12 13-15 16 2 8 12 13-15 16 2 8 18 19-21 22 0.5 2 21 22-24 25 .5 1 17 18-21 22 1 4 1 8 .5 8 .5 2 2 4
OFX OF1 OFX OFLX Ofloxacin BSAC X 322 1μg Quinolones Fluoroquinolone FQ 11b X Ofloxacin 18959-7 376-4 375-6 7038-3 20384-4 23948-3 377-2 374-9 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 1 8 1 4 1 8 .5 8 .5 2 23 - 24 2 4
OFX OF0 OFX OFLX Ofloxacin AFA,SRGA,NEO X X X 202 10μg Quinolones Fluoroquinolone FQ 11b X Ofloxacin 18959-7 376-4 375-6 7038-3 20384-4 23948-3 377-2 374-9 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 12 13-23 24 1 8 1 4 1 8 17 18-27 28 .5 8 17 18-23 24 .5 2 2 4
OLE OLE OL OLE Oleandomycin 167 15μg Macrolides MACRO 17 Oleandomyc 18960-5 380-6 379-8 381-4 378-0
OMC OMC Omadacycline CLSI X 502 Tetracyclines Aminomethylcycline TETRA 24c X 73594-4 73639-7 73616-5
OPT OPT Optochin 168 5μg Optochins OPT 27
ORB ORB ORB Orbifloxacin CLSI X 469 10μg Quinolones Fluoroquinolone FQ 11b X Orbifloxac 35827-5 35825-9 35826-7 17 18-22 23 1 8 17 18-22 23 1 8 17 18-22 23 1 8 17 18-22 23 1 8 17 18-22 23 1 8 17 18-22 23 1 8 17 18-22 23 1 8 17 18-22 23 1 8 17 18-22 23 1 8 17 18-22 23 1 8 17 18-22 23 1 8 17 18-22 23 1 8
ORI ORI Oritavancin CLSI,EUCAST X X X 442 Glycopeptides Glycopeptide LIPOGLYC 21a X Oritavanci 41736-0 41707-1 41708-9 41709-7
ORS ORS Ormetroprim/Sulfamethoxazole CLSI X 274 1.25/23.75μg Folate pathway inhibitors FOLATE 12a X 73593-6 73638-9 73615-7
ORN ORN ORN ORN Ornidazole 169 4μg Nitroimidazoles IMIDAZ 19
OXA OXA OX OXA Oxacillin CLSI,EUCAST X X X X X X 51 1μg X Penicillins Penicillin (Stable) PEN-S 01e X Oxacillin 18961-3 384-8 383-0 7039-1 385-5 382-2 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 2 4 1 2 1 4 9 10-11 12 14 - 15 2 4
OXA OX5 OX OXA Oxacillin DIN,NEO X X X 203 5μg X Penicillins Penicillin (Stable) PEN-S 01e X Oxacillin 18961-3 384-8 383-0 7039-1 385-5 382-2 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 15 - 16 19 - 20 2 4 15 - 16 1 2 1 4 2 4
OXA OX1 OX OXA Oxacillin AFA X 398 10μg X Penicillins Penicillin (Stable) PEN-S 01e X Oxacillin 18961-3 384-8 383-0 7039-1 385-5 382-2 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 .25 .5 2 4 1 2 19 - 20 1 4 2 4
OXO OXO OA OXL Oxolinic acid CLSI X 470 2μg Quinolones Quinolone QUIN 11a X Oxolinate 55696-9 55697-7 55695-1 55698-5
OXO OXO OA OXL Oxolinic acid X 90 10μg Quinolones Quinolone QUIN 11a Oxolinate 55696-9 55697-7 55695-1 55698-5 16 17-19 20 2 8
OXY OXY OT OTE OTC Oxytetracycline CLSI X X 170 30μg Tetracyclines TETRA 24 Oxytetracy 18962-1 388-9 387-1 389-7 386-3 16 17-18 19 4 16
OXY OX8 OT OTE OTC Oxytetracycline NEO X 374 80μg Tetracyclines TETRA 24 Oxytetracy 18962-1 388-9 387-1 389-7 386-3 14 15-27 28 4 16
PAS PAS PAS P-Aminosalicylic acid 171 Antimycobacterials MYCO 28 Para amino 23629-9 14332-1 23611-7
PAN PAN PAN PAPM-BP Panipenem 172 X Penems Carbapenems CARB 07a
PAR PAR PM PAR Paromomycin 275 Oligosaccharides OLIGO 27
PAZ PAZ PZF PZFX Pazufloxacin 457 Quinolones Fluoroquinolone FQ 11b
PEF PEF PEF Pefloxacin X 52 5μg Quinolones Fluoroquinolone FQ 11b Pefloxacin 18963-9 35828-3 390-5 7040-9 15 16-21 22 1 8 1 8
PEF PE0 PEF Pefloxacin NEO X 375 10μg Quinolones Fluoroquinolone FQ 11b Pefloxacin 18963-9 35828-3 390-5 7040-9 1 8 1 8
PEN PEN P PEN PCG Penicillin G CLSI,DIN,SRGA X X X X X 53 10units X Penicillins Penicillin PEN 01a X Penicillin 18965-4 393-9 392-1 7041-7 394-7 391-3 28 - 29 .125 .25 28 - 29 .125 .25 28 - 29 .125 .25 28 29 .125 .25 28 29 .125 .25 28 29 .125 .25 28 29 .125 .25 28 29 .125 .25 28 29 .125 .25 28 29 .125 .25 28 29 .125 .25 28 29 .125 .25 7 8-28 29 .25 32 12 13-23 24 0.125 2 .25 8 10 11-22 23 1 32 30 31-33 34 .125 .25
PEN PE1 P PEN PCG Penicillin G EUCAST X X X 323 1unit X Penicillins Penicillin PEN 01a X Penicillin 18965-4 393-9 392-1 7041-7 394-7 391-3 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .25 32 0.125 2 .25 8 1 32 24 - 25 .125 .25
PEN PE5 P PEN PCG Penicillin G NEO X 376 5μg X Penicillins Penicillin PEN 01a X Penicillin 18965-4 393-9 392-1 7041-7 394-7 391-3 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 .125 .25 14 15-27 28 .25 32 0.125 2 .25 8 1 32 .125 .25
PNV PNV PV PEN Penicillin V CLSI,EUCAST X X X X X 81 10μg X Penicillins Penicillin PEN 01a X Penicillin 18966-2 397-0 396-2 7042-5 398-8 395-4 0.125 2 20 21-25 26 1 4 30 31-33 34
PNO PNO Penicillin/Novobiocin CLSI X 84 10units/30μg Combinations Penicillin/Polypeptide OTHER 28 X Penicillin 35874-7 35872-1 35873-9 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4 14 15-17 18 1 4
PSU PSU PCG-SBT Penicillin/Sulbactam DIN X 437 10/10 X Beta-lactam+Inhibitors BL+INH 03 20 21-25 26 0.125 2
PIM PIM PIM Pentisomicin 276 Aminoglycosides AG 09
PTZ PTZ PTZ Pentizidone 277 Oxazolidinones OXAZOLID 20
PHE PHE PEPC Phenethicillin 458 X Penicillins Penicillin PEN 01a Phenethici 18967-0 401-0 400-2 402-8 399-6
PMR PMR PMR Pimaricin (Natamycin) 459 Antifungals FUNG 29
PPA PPA PI PIM PPA Pipemidic acid DIN X X 54 20μg Quinolones Quinolone QUIN 11a Pipemidate 18968-8 405-1 404-4 406-9 403-6 13 14-18 19 8 32 16 - 17 4 8 8 16
PPA PP3 PI PIM PPA Pipemidic acid NEO X 377 30μg Quinolones Quinolone QUIN 11a Pipemidate 18968-8 405-1 404-4 406-9 403-6 8 32 4 8 8 16
PIP PI7 PIP PIP PIPC Piperacillin BSAC X X 207 75μg X Penicillins Ureidopenicillin PEN 01c X Piperacill 18969-6 409-3 408-5 7043-3 410-1 407-7 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 11 12-19 20 8 128 4 64 16 128 16 32 23 - 24 16 32
PIP PIP PIP PIP PIPC Piperacillin CLSI X 55 100μg X Penicillins Ureidopenicillin PEN 01c X Piperacill 18969-6 409-3 408-5 7043-3 410-1 407-7 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 9 10-27 28 8 128 4 64 16 128 16 32 16 32
PIP PI3 PIP PIP PIPC Piperacillin EUCAST X X X X 206 30μg X Penicillins Ureidopenicillin PEN 01c X Piperacill 18969-6 409-3 408-5 7043-3 410-1 407-7 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 14 15-17 18 8 32 8 128 12 13-21 22 4 64 16 128 17 18-20 21 16 32 16 32
PIS PIS PIS PIPC-SBT Piperacillin/Sulbactam DIN X 278 30/15μg X Beta-lactam+Inhibitors BL+INH 03 13 14-21 22 4 64
TZP PTA PIT PIPC-TAZ Piperacillin/Tazobactam CLSI X 92 100/10μg X Beta-lactam+Inhibitors BL+INH 03 X Piperacill 18970-4 413-5 412-7 7044-1 414-3 411-9 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 17 18-20 21 16 128 16 128 17 18-20 21 16 128 17 18-20 21 16 128 9 10-27 28 8 128 4 64 16 64 8 32 16 32 16 32
TZP PT3 PIT PIPC-TAZ Piperacillin/Tazobactam EUCAST X X X 204 30/6μg X Beta-lactam+Inhibitors BL+INH 03 X Piperacill 18970-4 413-5 412-7 7044-1 414-3 411-9 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 14 15-17 18 8 32 8 128 4 64 16 64 8 32 17 18-20 21 16 32 16 32
TZP PT7 PIT PIPC-TAZ Piperacillin/Tazobactam BSAC X X 205 75/10μg X Beta-lactam+Inhibitors BL+INH 03 X Piperacill 18970-4 413-5 412-7 7044-1 414-3 411-9 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 13 14-20 21 8 128 4 64 16 64 8 32 16 32 23 - 24 16 32
TZP PT1 PIT PIPC-TAZ Piperacillin/Tazobactam DIN X 279 30/10μg X Beta-lactam+Inhibitors BL+INH 03 X Piperacill 18970-4 413-5 412-7 7044-1 414-3 411-9 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 16 128 8 128 14 15-21 22 4 64 16 64 8 32 16 32 16 32
PRC PRC PRC Piridicillin 280 X Penicillins ? PEN 01h
PRL PIL Pirlimycin CLSI X 173 2μg Lincosamides LINCO 15 X Pirlimycin 35831-7 35829-1 35830-9 12 - 13 2 4 12 - 13 2 4 12 - 13 2 4 12 13 2 4 12 13 2 4 12 13 2 4 12 13 2 4 12 13 2 4 12 13 2 4 12 13 2 4 12 13 2 4 12 13 2 4
PIR PIA PIR PA Piromidic acid X 281 25μg Quinolones Quinolone QUIN 11a 15 16-19 20 16 64
PME PME PMPC Pivmecillinam (Amdinocillin pivoxil) 460 X Penicillins Amidinopenicillin PEN 01f
PLZ PLZ Plazomicin CLSI X 503 Aminoglycosides AG 09 X 73592-8 73637-1 73614-0
POL POL PB POL PL-B Polymyxin B CLSI X 471 300units Lipopeptides Polymyxin LIPOPEP 16 X Polymyxin 18972-0 421-8 420-0 35832-5 422-6 419-2 11 - 12 2 8 11 - 12 2 8 11 - 12 2 8 11 12 2 8 11 12 2 8 11 12 2 8 11 12 2 8 11 12 2 8 11 12 2 8 11 12 2 8 11 12 2 8 11 12 2 8
POL POL PB POL PL-B Polymyxin B 56 50μg Lipopeptides Polymyxin LIPOPEP 16 X Polymyxin 18972-0 421-8 420-0 35832-5 422-6 419-2 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8 2 8
POS POS Posaconazole CLSI,NEO X X 478 5μg Antifungals FUNG 29
PRX PRX PRE Premafloxacin CLSI X 403 1μg Quinolones Fluoroquinolone FQ 11b X 73591-0 73636-3 73613-2
PRM PRM PRM Primycin 282 Macrolides MACRO 17
PRI PR3 PT PRI Pristinamycin NEO X 378 30μg Streptogramins STREPTOG 23 Pristinamy 32383-2 35833-3 35834-1 1 4
PRI PRI PT Pristinamycin X 93 15μg Streptogramins STREPTOG 23 Pristinamy 32383-2 35833-3 35834-1 18 19-21 22 1 4
PRP PRP PR PRO Propicillin DIN X 174 X Penicillins Aminopenicillin PEN 01b 0.125 0.25
PKA PKA PKA Propikacin 283 Aminoglycosides AG 09
PTH PRT PTH PTH Prothionamide 175 Antimycobacterials MYCO 28
PRU PRU PUFX Prulifloxacin 461 Quinolones Fluoroquinolone FQ 11b
PZA PZA PZA PZA Pyrazinamide 135 Antimycobacterials MYCO 28 Pyrazinami 18973-8 425-9 424-2 20461-0 23632-3 426-7 423-4
QDA QUI QPD QPR/DPR Quinupristin/Dalfopristin CLSI,EUCAST X X X X 176 15μg Streptogramins STREPTOG 23 X Quinuprist 23640-6 35835-8 23641-4 33334-4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 15 16-18 19 1 4 18 19-24 25 .5 4 19 - 20 2 4
RAC RAC Ractopamine 422 Phenethylamines PHEN 27 X
RAM RAM Ramoplanin CLSI X 493 Glycopeptides Lipoglycopeptide LIPOGLYC 21a X Ramoplanin 41737-8 41712-1 41710-5 41711-3
RZM RZM Razupenem CLSI X 489 10μg X Penems Carbapenems CARB 07a X 73590-2 73635-5 73612-4
RST RST RSM Ribostamycin 462 Aminoglycosides AG 09
RIB RIB RIB Rifabutin 136 Ansamycins RIF 10 Rifabutin 19149-4 16100-0 20386-9 23630-7
RIF RI3 RA RAM RFP Rifampin NEO X X 58 30μg Ansamycins RIF 10 X Rifampin 18974-6 429-1 428-3 7045-8 20385-1 23949-1 430-9 427-5 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 14 15-27 28 13 14-18 19 4 32 1 2 1 2 1 2 .125 .06
RIF RIF RA RAM RFP Rifampin CLSI,EUCAST X X X X X 57 5μg Ansamycins RIF 10 X Rifampin 18974-6 429-1 428-3 7045-8 20385-1 23949-1 430-9 427-5 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 16 17-19 20 1 4 4 32 1 2 25 26 27 1 2 21 22-24 25 1 2 .125 .06
RIF RI2 RA RAM RFP Rifampin BSAC X 324 2μg Ansamycins RIF 10 X Rifampin 18974-6 429-1 428-3 7045-8 20385-1 23949-1 430-9 427-5 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 1 4 4 32 1 2 1 2 1 2 29 - 30 .125 .06
RFX Rifaximin CLSI X 494 Ansamycins RIF 73589-4 73634-8 73611-6
RIT RIT RIPM Ritipenem 463 X Penems Carbapenems CARB 07a
RIA RIA RIPM-AC Ritipenem acoxil 464 X Penems Carbapenems CARB 07a
ROK ROK ROK ROK RKM Rokitamycin 284 Macrolides MACRO 17
ROS ROS ROS ROS Rosoxacin X 94 5μg Quinolones Quinolone QUIN 11a Rosoxacin 18977-9 441-6 440-8 442-4 439-0 1 2
RXT RO3 RXT ROX RXM Roxithromicin NEO X 379 30μg Macrolides MACRO 17 Roxithromy 18978-7 445-7 444-0 7046-6 446-5 443-2 12 13-17 18 1 2 1 2
RXT ROX RXT ROX RXM Roxithromicin SRGA X 77 15μg Macrolides MACRO 17 Roxithromy 18978-7 445-7 444-0 7046-6 446-5 443-2 1 2 19 20-24 25 1 2
SAL SAL Salinomycin 423 Combinations Coccidiostat/Ionophore OTHER 28 Salinomyci 35838-2 35836-6 35837-4
SAR SAR SAR Sarafloxacin CLSI X 285 5μg Quinolones Fluoroquinolone FQ 11b X 73588-6 73633-0 73610-8
SRX SRX SRX Sarmoxicillin 286 X Penicillins Aminopenicillin PEN 01b
SIS SIS SIS SIS SISO Sisomicin X 78 10μg Aminoglycosides AG 09 Sisomicin 18979-5 449-9 448-1 450-7 447-3 13 14-15 16 4 16
SIT SIT SIT STFX Sitafloxacin 465 Quinolones Fluoroquinolone FQ 11b
SOL SOL Solithromycin CLSI X 504 Macrolides Fluoroketolide MACRO 17c X 73587-8 73632-2 73609-0
SPX SP2 SPF SPFX Sparfloxacin BSAC 325 2μg Quinolones Fluoroquinolone FQ 11b X Sparfloxac 23628-1 35839-0 20397-6 7047-4 23610-9 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 1 4 1 4
SPX SPA SPF SPFX Sparfloxacin CLSI,DIN X X X 110 5μg Quinolones Fluoroquinolone FQ 11b X Sparfloxac 23628-1 35839-0 20397-6 7047-4 23610-9 15 16-18 19 .5 2 15 16-18 19 .5 2 15 16-18 19 .5 2 15 16-18 19 .5 2 15 16-18 19 .5 2 15 16-18 19 .5 2 15 16-18 19 .5 2 15 16-18 19 .5 2 15 16-18 19 .5 2 15 16-18 19 .5 2 15 16-18 19 .5 2 15 16-18 19 .5 2 15 16-19 20 1 4 18 19-22 23 1 4
SPX SP1 SPF SPFX Sparfloxacin NEO X 380 10μg Quinolones Fluoroquinolone FQ 11b Sparfloxac 23628-1 35839-0 20397-6 7047-4 23610-9 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 .5 2 1 4 1 4
SPT SP0 SPT SPT SPCM Spectinomycin NEO X 381 200μg Aminocyclitols AMINOC 08 X Spectinomy 18980-3 453-1 452-3 35840-8 454-9 451-5 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 64 128 8 16 64 128
SPT SPE SPT SPT SPCM Spectinomycin CLSI,EUCAST X X X 59 100μg Aminocyclitols AMINOC 08 X Spectinomy 18980-3 453-1 452-3 35840-8 454-9 451-5 14 15-17 18 32 128 14 15-17 18 32 128 19 - 20 64 128 8 16 64 128
SPT SP5 SPT SPCM Spectinomycin X 424 25μg Aminocyclitols AMINOC 08 X Spectinomy 18980-3 453-1 452-3 35840-8 454-9 451-5 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 32 128 64 128 8 16 13 - 14 64 128
SPI SPI SP SPM SPM Spiramycin X 95 100μg Macrolides MACRO 17 Spiramycin 18981-1 457-2 456-4 458-0 455-6 18 19-23 24 1 8
SPI SM2 SP SPM SPM Spiramycin NEO X 382 200μg Macrolides 16-Membered ring MACRO 17 Spiramycin 18981-1 457-2 456-4 458-0 455-6 1 8
STR STR S STR SM Streptomycin CLSI,BSAC X X X 60 10μg Aminoglycosides AG 09 X Streptomyc 18982-9 461-4 460-6 7048-2 20462-8 23626-5 462-2 459-8 11 12-14 15 11 12-14 15 11 12-14 15 11 12-14 15 11 12-14 15 11 12-14 15 11 12-14 15 11 12-14 15 11 12-14 15 11 12-14 15 11 12-14 15 11 12-14 15 12 13-14 15 8 32 4 32 12 - 13 8 16
STR ST1 S STR SM Streptomycin NEO X 383 100μg Aminoglycosides AG 09 X Streptomyc 18982-9 461-4 460-6 7048-2 20462-8 23626-5 462-2 459-8 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 14 15-27 28 8 32 4 32 8 16
STH STH Streptomycin-High CLSI X 139 300μg Aminoglycosides AG 09 X Streptomyc 18983-7 7049-0 6933-6 35841-6 6 7-9 10 1024 1025 6 7-9 10 1024 1025 6 7-9 10 1024 1025 6 7-9 10 1024 1025 6 7-9 10 1024 1025 6 7-9 10 1024 1025 6 7-9 10 1024 1025 6 7-9 10 1024 1025 6 7-9 10 1024 1025 6 7-9 10 1024 1025 6 7-9 10 1024 1025 6 7-9 10 1024 1025 250 501 500 1000
STH ST5 Streptomycin-High NEO X X 208 500μg Aminoglycosides AG 09 X Streptomyc 18983-7 7049-0 6933-6 35841-6 1000 1001 1000 1001 1000 1001 1000 1001 1000 1001 1000 1001 1000 1001 1000 1001 1000 1001 1000 1001 1000 1001 1000 1001 11 12-13 14 250 501 500 1000
SUL SBM SUL SBT Sulbactam CLSI X X 397 X Beta-lactamase inhibitors BL-INH 02 Sulbactam 41739-4 41716-2 41718-8 41717-0 8
SBC SLB SBC SBPC Sulbenicillin 125 X Penicillins Sulfonopenicillin PEN 01g
SUC SUC SUC Sulconazole 287 Antifungals FUNG 29
SUP SUP Sulfachlorpyridazine 288 Folate pathway inhibitors FOLATE 12a
SDI SDI SLD Sulfadiazine 425 Folate pathway inhibitors FOLATE 12a Sulfadiazi 18984-5 465-5 464-8 7050-8 466-3 463-0
SUD SUD X Sulfadimethoxine 289 Folate pathway inhibitors FOLATE 12a
SDM SDM SDM Sulfadimidine AFA X 290 250μg Folate pathway inhibitors FOLATE 12a 12 13-25 26 16 256
SZO SZO SZO Sulfamazone 291 Folate pathway inhibitors FOLATE 12a
SUM SUM Sulfamethazine 292 Folate pathway inhibitors FOLATE 12a
SMX SMX SMX SOZ Sulfamethoxazole CLSI X X 427 200-300μg Folate pathway inhibitors FOLATE 12a X Sulfametho 18985-2 469-7 468-9 11577-4 470-5 467-1 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 14 15-27 28 11 12-16 17 64 512 32 128 32 64
SMX SMX SMX SOZ Sulfamethoxazole X 293 100μg Folate pathway inhibitors FOLATE 12a X Sulfametho 18985-2 469-7 468-9 11577-4 470-5 467-1 256 512 256 512 256 512 256 512 256 512 256 512 256 512 256 512 256 512 256 512 256 512 256 512 64 512 32 128 13 - 14 32 64
SNA SNA SNA Sulfasuccinamide 294 Folate pathway inhibitors FOLATE 12a
SUT SUT ST Sulfathiazole 295 Folate pathway inhibitors FOLATE 12a
SOX SOX Sulfisoxazole CLSI X 404 200-300μg Folate pathway inhibitors FOLATE 12a X Sulfisoxaz 18986-0 473-9 472-1 11578-2 474-7 471-3 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 64 512
SSS SUL SSS SSS Sulfonamides CLSI X X 61 200-300μg Folate pathway inhibitors FOLATE 12a X Sulfonamid 18987-8 477-0 476-2 35842-4 478-8 475-4 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 12 13-16 17 256 512 14 15-27 28 11 12-16 17 64 512 32 128 32 64
SLP SLP Sulopenem CLSI X 484 2μg X Penems Penem PENEM 07b X Sulopenem 55289-3 55291-9 55290-1
TAL TAL TAPC Talampicillin 466 X Penicillins Aminopenicillin PEN 01b Talampicil 18988-6 481-2 480-4 482-0 479-6
TLP TLP TLP Talmetoprim 296 Folate pathway inhibitors FOLATE 12a
TAZ TAZ TAB TAZ Tazobactam CLSI X 297 X Beta-lactamase inhibitors BL-INH 02 Tazobactam 41740-2 41719-6 41721-2 41720-4
TZD TED Tedizolid CLSI,EUCAST X X X 505 Oxazolidinones OXAZOLID 20 73586-0 73631-4 73608-2
TEC TE6 TEC TPL TEIC Teicoplanin NEO X 384 60μg Glycopeptides Lipoglycopeptide GLYCO 21b X Teicoplani 18989-4 485-3 484-6 7051-6 486-1 483-8 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 8 32 12 13-21 22 4 32 2 8 4 16 4 8 4 8
TEC TEI TEC TPL TEIC Teicoplanin CLSI,EUCAST X X X X X 79 30μg Glycopeptides Lipoglycopeptide GLYCO 21b X Teicoplani 18989-4 485-3 484-6 7051-6 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 17 4 16 2 8 14 15 16 4 16 11 12-15 16 4 8 14 - 15 4 8
TCM TCM TEIC Teicoplanin-Macromethod 440 Glycopeptides Lipoglycopeptide GLYCO 21b
TLV TLV Telavancin CLSI X 472 30μg Glycopeptides Lipoglycopeptide GLYCO 21b X 72894-9 73630-6 72894-9
TLT TLT TEL TEL Telithromycin CLSI,EUCAST X X X 396 15μg Macrolides Ketolide MACRO 17b X Telithromy 35845-7 35843-2 35844-0 41722-0 18 19-21 22 1 4 18 19-21 22 1 4 18 19-21 22 1 4 18 19-21 22 1 4 18 19-21 22 1 4 18 19-21 22 1 4 18 19-21 22 1 4 18 19-21 22 1 4 18 19-21 22 1 4 18 19-21 22 1 4 18 19-21 22 1 4 18 19-21 22 1 4 16 17-20 21 .5 4
TMX TEM TMX TEM Temafloxacin CLSI X 111 5μg Quinolones Fluoroquinolone FQ 11b X Temafloxac 18990-2 489-5 488-7 490-3 487-9
TEM TEL TEM TMO Temocillin NEO X 298 30μg X Penicillins Penicillin (Stable) PEN-S 01e Temocillin 18991-0 493-7 492-9 494-5 491-1
TRB TRB Terbinafine NEO X 479 30μg Antifungals FUNG 29
TRC TRC Terconazole 480 Antifungals FUNG 29
TCY TET TE TET TC Tetracycline CLSI,EUCAST X X X X X X X 62 30μg Tetracyclines TETRA 24a X Tetracycli 18993-6 497-8 496-0 7052-4 498-6 495-2 11 12-14 15 4 16 11 12-14 15 4 16 11 12-14 15 4 16 11 12-14 15 4 16 11 12-14 15 4 16 11 12-14 15 4 16 11 12-14 15 4 16 11 12-14 15 4 16 11 12-14 15 4 16 11 12-14 15 4 16 11 12-14 15 4 16 11 12-14 15 4 16 16 17-18 19 4 16 16 17-21 22 1 8 1 8 19 20-24 25 1 4 21 22-24 25 2 4 33 - 34 1 2
TCY TE8 TE TET TC Tetracycline NEO X 399 80μg Tetracyclines TETRA 24 X Tetracycli 18993-6 497-8 496-0 7052-4 498-6 495-2 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 14 15-27 28 4 16 1 8 1 8 1 4 2 4 1 2
TCY TE1 TE TET TC Tetracycline BSAC,NEO X X 326 10μg Tetracyclines TETRA 24 X Tetracycli 18993-6 497-8 496-0 7052-4 498-6 495-2 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 1 8 1 8 1 4 2 4 1 2
TET TEP TET TTP Tetroxoprim 299 Folate pathway inhibitors FOLATE 12a
THA THA Thiacetazone 177 Antimycobacterials MYCO 28 Thiacetazo 32384-0
THI THI TP TPH TP Thiamphenicol 120 30μg Phenicols PHEN 22 Thiampheni 41723-8 41725-3 41724-6
THI TH6 TP TPH TP Thiamphenicol NEO X 385 60μg Phenicols PHEN 22 Thiampheni 41723-8 41725-3 41724-6
TIA TIA TIA Tiamulin CLSI,NEO X X 178 30μg Pleuromutilins OTHER 28 X Tiamulin 35848-1 35846-5 35847-3 8 - 9 16 32 8 - 9 16 32 8 - 9 16 32 8 9 16 32 8 9 16 32 8 9 16 32 8 9 16 32 8 9 16 32 8 9 16 32 8 9 16 32 8 9 16 32 8 9 16 32
TIC TIC TIC TIC Ticarcillin CLSI,EUCAST X X X 63 75μg X Penicillins Carboxypenicillin PEN 01d X Ticarcilli 18994-4 501-7 500-9 7053-2 502-5 499-4 14 15-19 20 16 128 14 15-19 20 16 128 21 22 23 8 32 9 10-27 28 17 18-21 22 16 128 16 128
TCC TIM TCC TCC Ticarcillin/Clavulanic acid CLSI,EUCAST X X X X X 64 75/10-15μg X Beta-lactam+Inhibitors BL+INH 03 X Ticarcilli 18995-1 505-8 504-1 7054-0 506-6 503-3 14 15-19 20 16 128 14 15-19 20 16 128 14 15-19 20 16 128 14 15-19 20 16 128 14 15-19 20 16 128 14 15-19 20 16 128 14 15-19 20 16 128 14 15-19 20 16 128 14 15-19 20 16 128 14 15-19 20 16 128 14 15-19 20 16 128 14 15-19 20 16 128 8 32 9 10-27 28 17 18-21 22 16 128 15 16-19 20 16 128 20 - 21 16 32
TGC TGC TGC Tigecycline CLSI,EUCAST X X X 473 15μg Tetracyclines Glycylglycine TETRA 24b X Tigecyclin 42357-4 42356-6 42355-8 42354-1 14 15-17 18 1 4 21 - 22 .25 1
TBQ TBQ TBQ Tilbroquinol 300 Quinolones Quinolone QUIN 11a
TIL TIL Tilmicosin CLSI X 179 15μg Macrolides 16-Membered ring MACRO 17a X Tilmicosin 35851-5 35849-9 35850-7 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32 10 11-13 14 8 32
TIN TIN TNZ Tinidazole CLSI X 180 4μg Nitroimidazoles IMIDAZ 29 Tinidazole 54928-7 55721-5 55720-7 55722-3
TIN TI1 TNZ Tinidazole CLSI,NEO X 386 16μg Nitroimidazoles IMIDAZ 29 Tinidazole 54928-7 55721-5 55720-7 55722-3
TDC TDC TDC Tiodonium chloride 301 Thiophenes THIO 27
TXC TXC TXC Tioxacin 302 Quinolones Quinolone QUIN 11a
TIZ TIZ Tizoxanide CLSI X 495 Thiazolides THIAZ 30 73585-2 73629-8 73607-4
TOB TO3 TM TOB TOB Tobramycin AFA,SRGA X X 209 30μg Aminoglycosides AG 09 X Tobramycin 18996-9 509-0 508-2 7055-7 25800-4 510-8 507-4 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 1 8 1 8 18 19-22 23 2 8 17 18-20 21 2 4 1 2
TOB TO4 TM TOB TOB Tobramycin NEO X 387 40μg Aminoglycosides AG 09 X Tobramycin 18996-9 509-0 508-2 7055-7 25800-4 510-8 507-4 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 4 16 14 15-25 26 4 16 1 8 1 8 2 8 2 4 1 2
TOB TOB TM TOB TOB Tobramycin CLSI,EUCAST X X X X X 65 10μg Aminoglycosides AG 09 X Tobramycin 18996-9 509-0 508-2 7055-7 25800-4 510-8 507-4 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 12 13-14 15 4 16 11 12-14 15 2 8 14 15-16 17 8 32 15 16-18 19 1 8 1 8 2 8 2 4 17 - 18 1 2
TFX TFX TFX TOS TFLX Tosufloxacin 303 Quinolones Fluoroquinolone FQ 11b
TMP TM2 TRP Trimethoprim X 426 2.5μg Folate pathway inhibitors FOLATE 12a X Trimethopr 18997-7 513-2 512-4 7056-5 23614-1 514-0 511-6 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 4 16 1 4 2 8 2 8 14 15-19 20 .5 4
TMP TMP TMP TRP Trimethoprim CLSI,EUCAST X X X X X X 66 5μg Folate pathway inhibitors FOLATE 12a X Trimethopr 18997-7 513-2 512-4 7056-5 23614-1 514-0 511-6 10 11-15 16 8 16 10 11-15 16 8 16 10 11-15 16 8 16 10 11-15 16 8 16 10 11-15 16 8 16 10 11-15 16 8 16 10 11-15 16 8 16 10 11-15 16 8 16 10 11-15 16 8 16 10 11-15 16 8 16 10 11-15 16 8 16 10 11-15 16 8 16 14 15-17 18 2 8 11 12-15 16 4 16 1 4 16 17-20 21 2 8 13 14-16 17 2 8 .5 4
TMP TM5 TMP TRP Trimethoprim NEO X 388 5.2μg Folate pathway inhibitors FOLATE 12a X Trimethopr 18997-7 513-2 512-4 7056-5 23614-1 514-0 511-6 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 8 16 12 13-21 22 4 16 1 4 2 8 2 8 .5 4
SXT SXT SXT SXT ST Trimethoprim/Sulfamethoxazole CLSI,EUCAST X X X X X X X 67 1.25/23.75μg Folate pathway inhibitors FOLATE 12a X Trimethopr 18998-5 517-3 516-5 7057-3 20387-7 23631-5 518-1 515-7 10 11-15 16 2 4 10 11-15 16 2 4 10 11-15 16 2 4 10 11-15 16 2 4 10 11-15 16 2 4 10 11-15 16 2 4 10 11-15 16 2 4 10 11-15 16 2 4 10 11-15 16 2 4 10 11-15 16 2 4 10 11-15 16 2 4 10 11-15 16 2 4 12 13-15 16 2 8 9 10-15 16 2 16 10 11-15 16 16 128 1 4 13 14-25 26 2 8 13 14-16 17 16 64 15 - 16 32 64
SXT SX5 SXT SXT ST Trimethoprim/Sulfamethoxazole NEO X 389 5.2/240μg Folate pathway inhibitors FOLATE 12a X Trimethopr 18998-5 517-3 516-5 7057-3 20387-7 23631-5 518-1 515-7 2 4 2 4 2 4 2 4 2 4 2 4 2 4 2 4 2 4 2 4 2 4 2 4 14 15-27 28 2 16 16 128 1 4 2 8 16 64 32 64
TRL TRL Troleandomycin 181 Macrolides MACRO 17 Troleandom 18999-3 521-5 520-7 522-3 519-9
TRO TRO TRS Trospectomycin CLSI X 112 30μg Aminocyclitols AMINOC 08 X Trospectin 35854-9 35852-3 35853-1
TVA TRV TRO Trovafloxacin CLSI X X 182 10μg Quinolones Fluoroquinolone FQ 11b X Trovafloxa 23642-2 35855-6 23643-0 7058-1 16 17-19 20 1 4 1 4 .25 2
TVA TRV TRO Trovafloxacin DIN X 438 5μg Quinolones Fluoroquinolone FQ 11b X Trovafloxa 23642-2 35855-6 23643-0 7058-1 16 17-19 20 1 4
TYL TYL TI TLS Tylosin NEO X 304 150μg Macrolides 16-Membered ring MACRO 17 X Tylosin 35858-0 35856-4 35857-2
PRU PRU Ulifloxacin (Prulifloxacin) 490 5μg Quinolones Fluoroquinolone FQ 11b
VAN VA7 VA VAN VCM Vancomycin NEO X 390 70μg Glycopeptides Glycopeptide GLYCO 21a X Vancomycin 19000-9 525-6 524-9 7059-9 23615-8 526-4 523-1 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 12 13-21 22 4 32 4 16 4 16 4 16 4 8 4 8
VAN VAN VA VAN VCM Vancomycin CLSI,AFA X X X 68 30μg Glycopeptides Glycopeptide GLYCO 21a X Vancomycin 19000-9 525-6 524-9 7059-9 23615-8 526-4 523-1 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 17 4 16 4 16 4 16 16 17-19 20 4 16 4 8 4 8
VAN VA5 VA VAN VCM Vancomycin EUCAST,NEO X X X X X 305 5μg Glycopeptides Glycopeptide GLYCO 21a X Vancomycin 19000-9 525-6 524-9 7059-9 23615-8 526-4 523-1 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 4 32 15 - 16 4 32 4 16 4 16 4 16 9 10-10 11 4 8 11 - 12 4 8
VAM VAM VCM Vancomycin-Macromethod 436 Glycopeptides Glycopeptide GLYCO 21a
VIO VIO VIO Viomycin 183 Antimycobacterials MYCO 28 Viomycin 19001-7 529-8 528-0 23616-6 530-6 527-2
VIR VI3 VG VIR Virginiamycine NEO X 391 30μg Streptogramins STREPTOG 23 Virginiamy 35861-4 35859-8 35860-6
VIR VIR VG VIR Virginiamycine X 184 15μg Streptogramins STREPTOG 23 Virginiamy 35861-4 35859-8 35860-6
VOR VOR VRCZ Voriconazole CLSI,NEO X X 431 1μg Antifungals FUNG 29 X Voriconazo 32379-0 41200-7 35863-0 35862-2 41199-1
AZA AZA Aztreonam/Avibactam CLSI X 510 30/20μg Beta-lactam+inhibitors BL+INH
POP POP Polymyxin B/Polysorbate 80 CLSI X 509 300units Lipopeptides Polymyxin LIPOPEP 16 X
SUR SUR Surotomycin CLSI X 514 Lipopeptides LIPOPEP
COP COP Colistin/Polysorbate CLSI X 508 10μg Lipopeptides LIPOPEP 16 X
ERV ERV Eravacycline CLSI X 513 20μg Fluorocyclines OTHER 28
DLM DLM Delamanid X X 512
BDQ BDQ Bedaquiline X X 511
FOV FOV Cefovecin CLSI X 515 Cephems Cephalosporin III CEPH3 04c X
GAM GAM Gamithromycin CLSI X 516 Macrolides 15-Membered ring MACRO X
KAC KAC Kanamycin/Cephalexin CLSI X 517 Combinations Aminoglycoside/Cephem OTHER 28 X
TIP TIP Tildipirosin CLSI X 519 60μg Macrolides 16-Membered ring MACRO X
PRA PRA Pradofloxacin CLSI X 518 Quinolones Fluoroquinolone FQ 11b X
TUL TUL Tulathromycin CLSI X 520 30μg Macrolides 15-Membered ring MACRO X 14 15-17 18 16 64 14 15-17 18 16 64 14 15-17 18 16 64 14 15-17 18 16 64 14 15-17 18 16 64 14 15-17 18 16 64 14 15-17 18 16 64
TVN Tylvalosin CLSI X 521 Macrolides 16-Membered ring MACRO X
AKF AKF Amikacin/Fosfomycin CLSI X 522 Combinations Aminoglycoside/Fosfomycin OTHER 28
CDZ CDZ Cadazolid CLSI X 523 Quinolonyl oxazolidinones OTHER 28
FPT FPT Cefepime/Tazobactam CLSI X 524 Beta-lactam+Inhibitors BL+INH 03c
DFX DFX Delafloxacin CLSI X 525 5μg Quinolones Quinolone QUIN 11a
GEP GEP Gepotidacin CLSI X 526 10μg Triazaacenaphylenes OTHER 28
IMR IMR Imipenem/relebactam CLSI X 527 10/25μg Beta-lactam+Inhibitors BL+INH 03c
LMU LMU Lefamulin CLSI X 528 20μg Pleuromutilins OTHER 28
LND LND Levonadifloxacin CLSI X 529 10μg Quinolones Benzoquinolizine BQ 11c
SEC SEC Secnidazole CLSI X 530 Nitroimidazoles IMIDAZ
ISV ISV Isavuconazole EUCAST X X 531 Antifungals FUNG
MUP MU2 MUP MUP Mupirocin EUCAST X X 532 200μg Pseudomonic acids PSEUDOM 27 X Mupirocin 20389-3 35822-6 35823-4 7033-4
MEV MEV Meropenem/Vaborbactam CLSI X 533 20/10μg Beta-lactam+Inhibitors 03c X 14 15-17 18 4 16 14 15-17 18 4 16 14 15-17 18 4 16
ZWK ZWK Nafithromycin CLSI X 534 15μg Macrolides Ketolide MACRO 17 X
PEX PEX Pexiganan CLSI X 535 Peptsides Magainin PEPTIDE X
RET Retapamulin CLSI X 538 Pleuromutilins
RPT Rifapentine CLSI X 539 Ansamycins
FDC FDC Cefiderocol CLSI X 537 Cephems Siderophore 4 16 4 16 4 16
FPZ FPZ Cefepime/Zidebactam CLSI X 536
ZID ZID Zidebactam CLSI 540 X
RID RID Ridinilazole CLSI 541 X
TBP TBP Tebipenem CLSI X 10μg Penems Carbapenems X
MNC MNC Meropenem/Nacubactam CLSI X Beta-lactam+Inhibitors
NAC NAC Nacubactam CLSI X Beta-lactamase inhibitors
TYL TYL Tylosin CLSI,EUCAST X X 304 30μg Macrolides 16-Membered ring 17
ITR ITR Itraconazole NEO X X 133 10μg Antifungals FUNG 29 X
CZA CZA Ceftazidime/Avibactam EUCAST 498 10/4μg Beta-lactam+Inhibitors 03 X 20 21 8 16 20 21 8 16 20 21 8 16
BPR BPR Ceftobiprole CLSI,EUCAST X X 474 5μg X Cephems Cephalosporin CEPH 04e X Ceftobipro 43272-4 43269-0 43271-6 43270-8
AMX AMX Amoxicillin X 82 20μg Penicillins Aminopenicillin 01b X
ZFD Zoliflodacin CLSI X 544 Spiropyrimidinetrione X
OZN Ozenoxacin CLSI X 543 Quinolones Fluoroquinolone FQ X
EXE Exebacase CLSI X 542 Antistaphylococcal lysin X
LIN LIN L LIN LCM Lincomycin CLSI X 38 4μg Lincosamides LINCO 15 Lincomycin 18938-1 300-4 299-8 41700-6 301-2 298-0 16 17-20 21 2 16 17 18-23 24 1 4
ANC Aztreonam/Nacubactam CLSI X 30μg X Beta-lactam+Inhibitors 06 X
FNC Cefepime/Nacubactam CLSI X
IBX Ibrexafungerp CLSI X Antifungals FUNG X
MGX Manogepix CLSI X 5μg Antifungals FUNG X
RZF Rezafungin CLSI X 5μg Antifungals FUNG X

23000
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@ -31,6 +31,7 @@
"AZL" 6479523 "Azlocillin" "Beta-lactams/penicillins" "J01CA09" "Beta-lactam antibacterials, penicillins" "Penicillins with extended spectrum" "c(\"az\", \"azl\", \"azlo\")" "" 12 "g" ""
"ATM" 5742832 "Aztreonam" "Beta-lactams/penicillins" "J01DF01" "Other beta-lactam antibacterials" "Monobactams" "c(\"at\", \"atm\", \"azm\", \"azt\", \"aztr\")" "c(\"azactam\", \"azetreonam\", \"azthreonam\", \"aztreonam\", \"primbactam\")" 4 "g" "c(\"16423-6\", \"25234-6\", \"3369-6\")"
"AZA" "Aztreonam/avibactam" "Beta-lactams/penicillins" "" "" ""
"ANC" "Aztreonam/nacubactam" "Beta-lactams/penicillins" "" "" ""
"BAM" 441397 "Bacampicillin" "Beta-lactams/penicillins" "J01CA06" "Beta-lactam antibacterials, penicillins" "Penicillins with extended spectrum" "" "c(\"bacampicilina\", \"bacampicillin\", \"bacampicilline\", \"bacampicillinum\", \"penglobe\")" 1.2 "g" "character(0)"
"BAC" 78358334 "Bacitracin zinc" "Other antibacterials" "R02AB04" "baci" "" ""
"BDQ" 5388906 "Bedaquiline" "Other antibacterials" "J04AK05" "" "c(\"bedaquiline\", \"sirturo\")" 86 "mg" "80637-2"
@ -41,7 +42,7 @@
)" 3.6 "g" "3913-1"
"BES" 10178705 "Besifloxacin" "Quinolones" "S01AE08" "" "besifloxacin" "character(0)"
"BIA" 71339 "Biapenem" "Carbapenems" "J01DH05" "" "c(\"biapenem\", \"biapenern\", \"bipenem\", \"omegacin\")" 1.2 "g" "character(0)"
"BCZ" 65807 "Bicyclomycin (Bicozamycin)" "Other antibacterials" "" "c(\"aizumycin\", \"bacfeed\", \"bacteron\", \"bicozamicina\", \"bicozamycin\", \"bicozamycine\", \"bicozamycinum\")" "character(0)"
"BCZ" 65807 "Bicyclomycin" "Other antibacterials" "c(\"\", \"bicozamycin\")" "c(\"aizumycin\", \"bacfeed\", \"bacteron\", \"bicozamicina\", \"bicozamycin\", \"bicozamycine\", \"bicozamycinum\")" "character(0)"
"BDP" 68760 "Brodimoprim" "Trimethoprims" "J01EA02" "Sulfonamides and trimethoprim" "Trimethoprim and derivatives" "" "c(\"brodimoprim\", \"brodimoprima\", \"brodimoprime\", \"brodimoprimum\", \"bromdimoprim\", \"hyprim\", \"unitrim\")" 0.2 "g" "character(0)"
"BUT" 47472 "Butoconazole" "Antifungals/antimycotics" "G01AF15" "" "c(\"butaconazole\", \"butoconazol\", \"butoconazole\", \"butoconazolum\", \"compositenstarke\", \"dahlin\", \"femstat\", \"gynofort\", \"polyfructosanum\")" "character(0)"
"CDZ" 44242317 "Cadazolid" "Oxazolidinones" "" "cadazolid" "character(0)"
@ -67,11 +68,12 @@
"DIX" 6437877 "Cefditoren pivoxil" "Cephalosporins (3rd gen.)" "" "c(\"cefditoren\", \"cefditoren pi voxil\", \"cefditoren pivoxil\", \"cefditorin\", \"cefditorin pivoxil\", \"meiact\", \"spectracef\")" "character(0)"
"FEP" 5479537 "Cefepime" "Cephalosporins (4th gen.)" "J01DE01" "Other beta-lactam antibacterials" "Fourth-generation cephalosporins" "c(\"cfep\", \"cfpi\", \"cpe\", \"cpm\", \"fep\", \"pm\", \"xpm\")" "c(\"axepim\", \"cefepima\", \"cefepime\", \"cefepimum\", \"cepimax\", \"cepimex\", \"maxcef\", \"maxipime\")" 4 "g" "38363-8"
"CPC" 9567559 "Cefepime/clavulanic acid" "Cephalosporins (4th gen.)" "c(\"cicl\", \"xpml\")" "" ""
"FNC" "Cefepime/nacubactam" "Beta-lactams/penicillins" "" "" ""
"FPT" 9567558 "Cefepime/tazobactam" "Cephalosporins (4th gen.)" "" "" ""
"FPZ" "Cefepime/zidebactam" "Other antibacterials" "" "" ""
"CAT" 5487888 "Cefetamet" "Cephalosporins (3rd gen.)" "J01DD10" "Other beta-lactam antibacterials" "Third-generation cephalosporins" "" "c(\"cefetamet\", \"cefetametum\", \"cepime o\", \"deacetoxycefotaxime\")" 1 "g" "character(0)"
"CPI" 5486182 "Cefetamet pivoxil" "Cephalosporins (3rd gen.)" "" "c(\"cefetamet pivoxyl\", \"globocef\")" "character(0)"
"CCL" 71719688 "Cefetecol (Cefcatacol)" "Cephalosporins (4th gen.)" "" "" ""
"CCL" 71719688 "Cefetecol" "Cephalosporins (4th gen.)" "c(\"\", \"cefcatacol\")" "" ""
"CZL" 193956 "Cefetrizole" "Cephalosporins (unclassified gen.)" "" "c(\"cefetrizole\", \"cefetrizolum\")" "character(0)"
"FDC" 77843966 "Cefiderocol" "Other antibacterials" "J01DI04" "" "cefiderocol" "character(0)"
"CFM" 5362065 "Cefixime" "Cephalosporins (3rd gen.)" "J01DD08" "Other beta-lactam antibacterials" "Third-generation cephalosporins" "c(\"cfe\", \"cfix\", \"cfxm\", \"dcfm\", \"fix\", \"ix\")" "c(\"cefixim\", \"cefixima\", \"cefixime\", \"cefixime anhydrous\", \"cefiximum\", \"cefixoral\", \"cefspan\", \"cephoral\", \"denvar\", \"necopen\", \"suprax\", \"tricef\", \"unixime\")" 0.4 "g" "c(\"16567-0\", \"25236-1\")"
@ -176,7 +178,7 @@
"ECO" 3198 "Econazole" "Antifungals/antimycotics" "c(\"D01AC03\", \"G01AF05\")" "Antifungals for topical use" "Imidazole and triazole derivatives" "econ" "c(\"econazol\", \"econazole\", \"econazolum\", \"ecostatin\", \"ecostatin cream\", \"palavale\", \"pevaryl\", \"spectazole\", \"spectazole cream\")" "character(0)"
"ENX" 3229 "Enoxacin" "Quinolones" "J01MA04" "Quinolone antibacterials" "Fluoroquinolones" "c(\"\", \"enox\")" "c(\"almitil\", \"bactidan\", \"bactidron\", \"comprecin\", \"enofloxacine\", \"enoksetin\", \"enoram\", \"enoxacin\", \"enoxacina\", \"enoxacine\", \"enoxacino\", \"enoxacinum\", \"enoxen\", \"enoxin\", \"enoxor\", \"flumark\", \"penetrex\")" 0.8 "g" "c(\"16816-1\", \"3590-7\")"
"ENR" 71188 "Enrofloxacin" "Quinolones" "" "c(\"baytril\", \"enrofloxacin\", \"enrofloxacine\", \"enrofloxacino\", \"enrofloxacinum\")" "character(0)"
"ENV" 135565326 "Enviomycin (Tuberactinomycin)" "Antimycobacterials" "" "c(\"enviomicina\", \"enviomycin\", \"enviomycina\", \"enviomycinum\")" "character(0)"
"ENV" 135565326 "Enviomycin" "Antimycobacterials" "c(\"\", \"tuberactinomycin\")" "c(\"enviomicina\", \"enviomycin\", \"enviomycina\", \"enviomycinum\")" "character(0)"
"EPE" "Eperozolid" "Other antibacterials" "" "" ""
"EPC" 71392 "Epicillin" "Beta-lactams/penicillins" "J01CA07" "Beta-lactam antibacterials, penicillins" "Penicillins with extended spectrum" "" "c(\"dexacillin\", \"dihydroampicillin\", \"epicilina\", \"epicillin\", \"epicilline\", \"epicillinum\")" 2 "g" 2 "g" "character(0)"
"EPP" 68916 "Epiroprim" "Other antibacterials" "" "c(\"epiroprim\", \"epiroprima\", \"epiroprime\", \"epiroprimum\")" "character(0)"
@ -190,6 +192,7 @@
"ETI1" 2761171 "Ethionamide" "Antimycobacterials" "J04AD03" "Drugs for treatment of tuberculosis" "Thiocarbamide derivatives" "ethi" "c(\"aethionamidum\", \"aetina\", \"aetiva\", \"amidazin\", \"amidazine\", \"ethatyl\", \"ethimide\", \"ethina\", \"ethinamide\", \"ethionamide\", \"ethionamidum\", \"ethioniamide\", \"ethylisothiamide\", \"ethyonomide\", \"etimid\", \"etiocidan\", \"etionamid\", \"etionamida\", \"etionamide\", \"etioniamid\", \"etionid\", \"etionizin\", \"etionizina\", \"etionizine\", \"fatoliamid\", \"iridocin\", \"iridocin bayer\", \"iridozin\", \"isothin\", \"isotiamida\", \"itiocide\", \"nicotion\", \"nisotin\", \"nizotin\", \"rigenicid\", \"sertinon\", \"teberus\", \"thianid\", \"thianide\",
\"thioamide\", \"thiodine\", \"thiomid\", \"thioniden\", \"tianid\", \"tiomid\", \"trecator\", \"trecator sc\", \"trekator\", \"trescatyl\", \"trescazide\", \"tubenamide\", \"tubermin\", \"tuberoid\", \"tuberoson\")" 0.75 "g" "16845-0"
"ETO" 6034 "Ethopabate" "Other antibacterials" "" "c(\"amprol plus\", \"ethopabat\", \"ethopabate\", \"ethyl pabate\")" "character(0)"
"EXE" "Exebacase" "" "" ""
"FAR" 65894 "Faropenem" "Other antibacterials" "J01DI03" "Other beta-lactam antibacterials" "Other cephalosporins and penems" "" "c(\"faropenem\", \"faropenem sodium\", \"fropenem\", \"fropenum sodium\")" 0.75 "g" "character(0)"
"FDX" 10034073 "Fidaxomicin" "Other antibacterials" "A07AA12" "" "c(\"dificid\", \"dificlir\", \"difimicin\", \"fidaxomicin\", \"lipiarmycin\", \"tiacumicin b\")" 0.4 "g" "character(0)"
"FIN" 11567473 "Finafloxacin" "Quinolones" "" "finafloxacin" "character(0)"
@ -223,6 +226,7 @@
"HCH" 11979956 "Hachimycin" "Antifungals/antimycotics" "c(\"D01AA03\", \"G01AA06\", \"J02AA02\")" "Antimycotics for systemic use" "Antibiotics" "" "c(\"cabimicina\", \"hachimicina\", \"hachimycin\", \"hachimycine\", \"hachimycinum\", \"trichomycinum\", \"trichonat\")" "character(0)"
"HET" 443387 "Hetacillin" "Beta-lactams/penicillins" "J01CA18" "Beta-lactam antibacterials, penicillins" "Penicillins with extended spectrum" "" "c(\"etacillina\", \"hetacilina\", \"hetacillin\", \"hetacilline\", \"hetacillinum\", \"phenazacillin\", \"versapen\")" 2 "g" "character(0)"
"HYG" 56928061 "Hygromycin" "Aminoglycosides" "" "c(\"antihelmycin\", \"hydromycin b\", \"hygrovetine\")" "character(0)"
"IBX" "Ibrexafungerp" "Antifungals" "" "" ""
"ICL" 213043 "Iclaprim" "Other antibacterials" "J01EA03" "" "c(\"iclaprim\", \"mersarex\")" "character(0)"
"IPM" 104838 "Imipenem" "Carbapenems" "J01DH51" "Other beta-lactam antibacterials" "Carbapenems" "c(\"imci\", \"imi\", \"imip\", \"imp\")" "c(\"imipemide\", \"imipenem\", \"imipenem anhydrous\", \"imipenem/cilastatin\", \"imipenemum\", \"imipenen\", \"primaxin\", \"tienamycin\")" 2 "g" "c(\"17010-0\", \"25257-7\", \"27331-8\", \"3688-9\")"
"IPE" "Imipenem/EDTA" "Carbapenems" "" "" ""
@ -241,14 +245,14 @@
"KAH" "Kanamycin-high" "Aminoglycosides" "c(\"\", \"k_h\", \"kahl\")" "" ""
"KAC" "Kanamycin/cephalexin" "Aminoglycosides" "" "" ""
"KET" 456201 "Ketoconazole" "Antifungals/antimycotics" "c(\"D01AC08\", \"G01AF11\", \"H02CA03\", \"J02AB02\")" "Antimycotics for systemic use" "Imidazole derivatives" "c(\"keto\", \"ktc\")" "c(\"extina\", \"fungarest\", \"fungoral\", \"ketocanazole\", \"ketoconazol\", \"ketoconazole\", \"ketoconazolum\", \"ketoderm\", \"nizoral\", \"xolegel\")" 0.2 "g" "c(\"10990-0\", \"12393-5\", \"25259-3\", \"60091-6\", \"60092-4\")"
"KIT" "Kitasamycin (Leucomycin)" "Macrolides/lincosamides" "" "" ""
"KIT" "Kitasamycin" "Macrolides/lincosamides" "c(\"\", \"leucomycin\")" "" ""
"LAS" 5360807 "Lasalocid" "Other antibacterials" "" "c(\"avatec\", \"lasalocid\", \"lasalocid a\", \"lasalocide\", \"lasalocide a\", \"lasalocido\", \"lasalocidum\")" "87598-9"
"LTM" 47499 "Latamoxef" "Cephalosporins (3rd gen.)" "J01DD06" "Other beta-lactam antibacterials" "Third-generation cephalosporins" "c(\"mox\", \"moxa\")" "c(\"disodium moxalactam\", \"festamoxin\", \"lamoxactam\", \"latamoxef\", \"latamoxefum\", \"shiomarin\")" 4 "g" "character(0)"
"LTM" 47499 "Latamoxef" "Cephalosporins (3rd gen.)" "J01DD06" "Other beta-lactam antibacterials" "Third-generation cephalosporins" "c(\"mox\", \"moxa\", \"moxalactam\")" "c(\"disodium moxalactam\", \"festamoxin\", \"lamoxactam\", \"latamoxef\", \"latamoxefum\", \"shiomarin\")" 4 "g" "character(0)"
"LMU" 25185057 "Lefamulin" "Other antibacterials" "J01XX12" "" "lefamulin" "character(0)"
"LEN" 65646 "Lenampicillin" "Beta-lactams/penicillins" "" "c(\"lenampicilina\", \"lenampicillin\", \"lenampicillin hcl\", \"lenampicilline\", \"lenampicillinum\")" "character(0)"
"LVX" 149096 "Levofloxacin" "Quinolones" "c(\"J01MA12\", \"S01AE05\")" "Quinolone antibacterials" "Fluoroquinolones" "c(\"le\", \"lev\", \"levo\", \"lvx\")" "c(\"aeroquin\", \"cravit\", \"cravit hydrate\", \"cravit iv\", \"cravit ophthalmic\", \"elequine\", \"floxacin\", \"floxel\", \"iquix hydrate\", \"leroxacin\", \"lesacin\", \"levaquin\", \"levaquin hydrate\", \"levo floxacin\", \"levofiexacin\", \"levofloxacin\", \"levofloxacin hydrate\", \"levofloxacine\", \"levofloxacino\", \"levofloxacinum\", \"levokacin\", \"levoxacin\", \"mosardal\", \"nofaxin\", \"oftaquix\", \"quixin\", \"reskuin\", \"tavanic\", \"unibiotic\", \"venaxan\", \"volequin\")" 0.5 "g" 0.5 "g" "c(\"21368-6\", \"30532-6\", \"30533-4\")"
"LND" 9850038 "Levonadifloxacin" "Quinolones" "J01MA24" "" "levonadifloxacin" "character(0)"
"LSP" "Linco-spectin (lincomycin/spectinomycin)" "Other antibacterials" "" "" ""
"LSP" "Linco-spectin" "Other antibacterials" "c(\"\", \"lincomycin/spectinomycin\")" "" ""
"LIN" 3000540 "Lincomycin" "Macrolides/lincosamides" "J01FF02" "Macrolides, lincosamides and streptogramins" "Lincosamides" "linc" "c(\"cillimycin\", \"jiemycin\", \"lincolcina\", \"lincolnensin\", \"lincomicina\", \"lincomycin\", \"lincomycin a\", \"lincomycine\", \"lincomycinum\")" 1.8 "g" 1.8 "g" "87597-1"
"LNZ" 441401 "Linezolid" "Oxazolidinones" "J01XX08" "Other antibacterials" "Other antibacterials" "c(\"line\", \"lnz\", \"lz\", \"lzd\")" "c(\"linezlid\", \"linezoid\", \"linezolid\", \"linezolide\", \"linezolidum\", \"zivoxid\", \"zyvoxa\", \"zyvoxam\", \"zyvoxid\")" 1.2 "g" 1.2 "g" "c(\"34202-2\", \"80609-1\")"
"LFE" "Linoprist-flopristin" "Other antibacterials" "" "" ""
@ -256,8 +260,9 @@
"LOR" 5284585 "Loracarbef" "Cephalosporins (2nd gen.)" "J01DC08" "Other beta-lactam antibacterials" "Second-generation cephalosporins" "c(\"\", \"lora\")" "c(\"anhydrous loracarbef\", \"lorabid\", \"loracarbef\", \"loracarbefum\", \"lorbef\", \"loribid\")" 0.6 "g" "character(0)"
"LYM" 54707177 "Lymecycline" "Tetracyclines" "J01AA04" "Tetracyclines" "Tetracyclines" "" "c(\"biovetin\", \"chlortetracyclin\", \"ciclisin\", \"ciclolysal\", \"infaciclina\", \"limeciclina\", \"lisinbiotic\", \"lymecyclin\", \"lymecycline\", \"lymecyclinum\", \"mucomycin\", \"ntetracycline\", \"tetralisal\", \"tetralysal\", \"vebicyclysal\")" 0.6 "g" 0.6 "g" "character(0)"
"MNA" 1292 "Mandelic acid" "Other antibacterials" "c(\"B05CA06\", \"J01XX06\")" "Other antibacterials" "Other antibacterials" "" "c(\"acido mandelico\", \"almond acid\", \"amygdalic acid\", \"benzoglycolic acid\", \"hydroxyacetic acid\", \"kyselina mandlova\", \"mandelic acid\", \"paramandelic acid\", \"phenylglycolic acid\", \"uromaline\")" 12 "g" "character(0)"
"MGX" "Manogepix" "Antifungals" "" "" ""
"MAR" 60651 "Marbofloxacin" "Quinolones" "" "c(\"marbocyl\", \"marbofloxacin\", \"marbofloxacine\", \"marbofloxacino\", \"marbofloxacinum\", \"zeniquin\")" "character(0)"
"MEC" 36273 "Mecillinam (Amdinocillin)" "Beta-lactams/penicillins" "J01CA11" "Beta-lactam antibacterials, penicillins" "Penicillins with extended spectrum" "" "c(\"amdinocillin\", \"coactin\", \"hexacillin\", \"mecilinamo\", \"mecillinam\", \"mecillinamum\", \"micillinam\", \"penicillin hx\", \"selexidin\")" 1.2 "g" "character(0)"
"MEC" 36273 "Mecillinam" "Beta-lactams/penicillins" "J01CA11" "Beta-lactam antibacterials, penicillins" "Penicillins with extended spectrum" "c(\"\", \"amdinocillin\")" "c(\"amdinocillin\", \"coactin\", \"hexacillin\", \"mecilinamo\", \"mecillinam\", \"mecillinamum\", \"micillinam\", \"penicillin hx\", \"selexidin\")" 1.2 "g" "character(0)"
"MEL" 71306732 "Meleumycin" "Macrolides/lincosamides" "" "" ""
"MEM" 441130 "Meropenem" "Carbapenems" "J01DH02" "Other beta-lactam antibacterials" "Carbapenems" "c(\"mem\", \"mer\", \"mero\", \"mp\", \"mrp\")" "c(\"meronem\", \"meropen\", \"meropenem\", \"meropenem anhydrous\", \"meropenem hydrate\", \"meropenem trihydrate\", \"meropenemum\", \"merrem\", \"merrem i.v.\", \"merrem iv\")" 3 "g" "41406-0"
"MNC" "Meropenem/nacubactam" "Carbapenems" "" "" ""
@ -324,6 +329,7 @@
"OXO" 4628 "Oxolinic acid" "Quinolones" "J01MB05" "Quinolone antibacterials" "Other quinolones" "" "c(\"acide oxolinique\", \"acido ossolico\", \"acido oxolinico\", \"acidum oxolinicum\", \"aqualinic\", \"cistopax\", \"dioxacin\", \"emyrenil\", \"gramurin\", \"inoxyl\", \"nidantin\", \"oksaren\", \"orthurine\", \"ossian\", \"oxoboi\", \"oxolinic\", \"oxolinic acid\", \"pietil\", \"prodoxal\", \"prodoxol\", \"starner\", \"tiurasin\", \"ultibid\", \"urinox\", \"uritrate\", \"urotrate\", \"uroxol\", \"utibid\")" 1 "g" "character(0)"
"OXY" 54675779 "Oxytetracycline" "Tetracyclines" "c(\"D06AA03\", \"G01AA07\", \"J01AA06\", \"S01AA04\")" "Tetracyclines" "Tetracyclines" "" "c(\"adamycin\", \"berkmycen\", \"biostat\", \"biostat pa\", \"dabicycline\", \"dalimycin\", \"embryostat\", \"fanterrin\", \"galsenomycin\", \"geomycin\", \"geotilin\", \"hydroxytetracyclinum\", \"imperacin\", \"lenocycline\", \"macocyn\", \"medamycin\", \"mepatar\", \"oksisyklin\", \"ossitetraciclina\", \"oxacycline\", \"oxitetraciclina\", \"oxitetracyclin\", \"oxitetracycline\", \"oxitetracyclinum\", \"oxydon\", \"oxymycin\", \"oxymykoin\", \"oxypam\", \"oxysteclin\", \"oxyterracin\", \"oxyterracine\", \"oxyterracyne\", \"oxytetracid\", \"oxytetracyclin\", \"oxytetracycline\",
\"oxytetracycline base\", \"oxytetracyclinum\", \"proteroxyna\", \"riomitsin\", \"ryomycin\", \"solkaciclina\", \"stecsolin\", \"stevacin\", \"tarocyn\", \"tarosin\", \"teravit\", \"terrafungine\", \"terramitsin\", \"terramycin\", \"terramycin im\", \"tetran\", \"unimycin\", \"ursocyclin\", \"ursocycline\", \"vendarcin\")" 1 "g" 1 "g" "c(\"17396-3\", \"25266-8\", \"87595-5\")"
"OZN" "Ozenoxacin" "" "" ""
"PAS" 4649 "P-aminosalicylic acid" "Antimycobacterials" "" "c(\"aminopar\", \"aminosalicylic\", \"aminosalicylic acid\", \"aminosalyl\", \"aminox\", \"apacil\", \"deapasil\", \"entepas\", \"ferrosan\", \"gabbropas\", \"helipidyl\", \"hellipidyl\", \"neopasalate\", \"osacyl\", \"pamacyl\", \"pamisyl\", \"paramycin\", \"parasal\", \"parasalicil\", \"parasalindon\", \"pasalon\", \"pasara\", \"pascorbic\", \"pasdium\", \"paser granules\", \"paskalium\", \"pasmed\", \"pasnodia\", \"pasolac\", \"propasa\", \"rezipas\", \"teebacin\", \"wln: zr cq dvq\")" "character(0)"
"PAN" 72015 "Panipenem" "Carbapenems" "" "c(\"panipenem\", \"panipenemum\", \"penipanem\")" "character(0)"
"PAR" 165580 "Paromomycin" "Other antibacterials" "A07AA06" "" "c(\"aminosidin\", \"aminosidine\", \"aminosidine i\", \"aminosidine sulfate\", \"amminosidin\", \"crestomycin\", \"estomycin\", \"gabbromicina\", \"gabbromycin\", \"gabromycin\", \"humatin\", \"humycin\", \"hydroxymycin\", \"hydroxymycin sulfate\", \"monomycin\", \"monomycin a\", \"neomycin e\", \"paramomycin\", \"paramomycin sulfate\", \"paromomicina\", \"paromomycin\", \"paromomycin i\", \"paromomycine\", \"paromomycinum\", \"paucimycin\", \"paucimycinum\", \"quintomycin c\")" 3 "g" "character(0)"
@ -338,7 +344,7 @@
"PEX" 16132253 "Pexiganan" "Other antibacterials" "" "pexiganan" "character(0)"
"PHE" 272833 "Phenethicillin" "Beta-lactams/penicillins" "J01CE05" "Beta-lactam antibacterials, penicillins" "Beta-lactamase sensitive penicillins" "c(\"\", \"fene\")" "c(\"feneticilina\", \"feneticillina\", \"feneticilline\", \"k phenethicillin\", \"phenethicilin\", \"phenethicillinum\", \"pheneticillin\", \"pheneticilline\", \"pheneticillinum\", \"phenoxy pc\", \"potassium penicillin\")" 1 "g" "41471-4"
"PHN" 6869 "Phenoxymethylpenicillin" "Beta-lactams/penicillins" "J01CE02" "Beta-lactam antibacterials, penicillins" "Beta-lactamase sensitive penicillins" "c(\"fepe\", \"peni v\", \"penicillin v\", \"pnv\", \"pv\")" "c(\"acipen v\", \"apocillin\", \"apopen\", \"beromycin\", \"calcipen\", \"compocillin v\", \"crystapen v\", \"distaquaine v\", \"eskacillian v\", \"eskacillin v\", \"fenacilin\", \"fenospen\", \"meropenin\", \"oracillin\", \"oratren\", \"penicillin v\", \"phenocillin\", \"phenomycilline\", \"phenopenicillin\", \"robicillin\", \"rocilin\", \"stabicillin\", \"vebecillin\", \"veetids\", \"vegacillin\")" 2 "g" "character(0)"
"PMR" 5284447 "Pimaricin (Natamycin)" "Antifungals/antimycotics" "" "c(\"delvocid\", \"mycophyt\", \"myprozine\", \"natacyn\", \"natamicina\", \"natamycin\", \"natamycine\", \"natamycinum\", \"pimafucin\", \"pimaracin\", \"pimarizin\", \"synogil\", \"tennecetin\")" "character(0)"
"PMR" 5284447 "Pimaricin" "Antifungals/antimycotics" "c(\"\", \"natamycin\")" "c(\"delvocid\", \"mycophyt\", \"myprozine\", \"natacyn\", \"natamicina\", \"natamycin\", \"natamycine\", \"natamycinum\", \"pimafucin\", \"pimaracin\", \"pimarizin\", \"synogil\", \"tennecetin\")" "character(0)"
"PPA" 4831 "Pipemidic acid" "Quinolones" "J01MB04" "Quinolone antibacterials" "Other quinolones" "c(\"pipz\", \"pizu\")" "c(\"acide pipemidique\", \"acido pipemidico\", \"acidum pipemidicum\", \"deblaston\", \"dolcol\", \"pipedac\", \"pipemid\", \"pipemidic\", \"pipemidic acid\", \"pipemidicacid\", \"pipram\", \"uromidin\")" 0.8 "g" "character(0)"
"PIP" 43672 "Piperacillin" "Beta-lactams/penicillins" "J01CA12" "Beta-lactam antibacterials, penicillins" "Penicillins with extended spectrum" "c(\"pi\", \"pip\", \"pipc\", \"pipe\", \"pp\")" "c(\"isipen\", \"pentcillin\", \"peperacillin\", \"peracin\", \"piperacilina\", \"piperacillin\", \"piperacillin na\", \"piperacillin sodium\", \"piperacilline\", \"piperacillinum\", \"pipercillin\", \"pipracil\", \"pipril\")" 14 "g" "c(\"25268-4\", \"3972-7\")"
"PIS" "Piperacillin/sulbactam" "Beta-lactams/penicillins" "" "" ""
@ -368,7 +374,8 @@
"RAC" 56052 "Ractopamine" "Other antibacterials" "" "c(\"ractopamina\", \"ractopamine\", \"ractopaminum\")" "character(0)"
"RAM" 16132338 "Ramoplanin" "Glycopeptides" "" "ramoplanin" "character(0)"
"RZM" 10993211 "Razupenem" "Carbapenems" "" "razupenem" "character(0)"
"RTP" 6918462 "Retapamulin" "Other antibacterials" "D06AX13" "Antibiotics for topical use" "Other antibiotics for topical use" "" "c(\"altabax\", \"altargo\", \"retapamulin\")" "character(0)"
"RTP" 6918462 "Retapamulin" "Other antibacterials" "D06AX13" "Antibiotics for topical use" "Other antibiotics for topical use" "c(\"\", \"ret\")" "c(\"altabax\", \"altargo\", \"retapamulin\")" "character(0)"
"RZF" "Rezafungin" "Antifungals" "" "" ""
"RBC" 44631912 "Ribociclib" "Antifungals/antimycotics" "L01EF02" "Antimycotics for systemic use" "Triazole derivatives" "ribo" "c(\"kisqali\", \"ribociclib\")" "character(0)"
"RST" 33042 "Ribostamycin" "Aminoglycosides" "J01GB10" "Aminoglycoside antibacterials" "Other aminoglycosides" "" "c(\"dekamycin iv\", \"hetangmycin\", \"ribastamin\", \"ribostamicina\", \"ribostamycin\", \"ribostamycine\", \"ribostamycinum\", \"vistamycin\", \"xylostatin\")" 1 "g" "character(0)"
"RID1" 16659285 "Ridinilazole" "Other antibacterials" "" "ridinilazole" "character(0)"
@ -379,7 +386,7 @@
"RPEI" "Rifampicin/pyrazinamide/ethambutol/isoniazid" "Antimycobacterials" "J04AM06" "Drugs for treatment of tuberculosis" "Combinations of drugs for treatment of tuberculosis" "" "" ""
"RPI" "Rifampicin/pyrazinamide/isoniazid" "Antimycobacterials" "J04AM05" "Drugs for treatment of tuberculosis" "Combinations of drugs for treatment of tuberculosis" "" "" ""
"RFM" 6324616 "Rifamycin" "Antimycobacterials" "c(\"A07AA13\", \"D06AX15\", \"J04AB03\", \"S01AA16\", \"S02AA12\")" "Drugs for treatment of tuberculosis" "Antibiotics" "" "c(\"aemcolo\", \"rifacin\", \"rifamicina\", \"rifamicine sv\", \"rifamycin\", \"rifamycine\", \"rifamycinum\", \"rifocin\", \"rifocyn\", \"rifomycin\", \"rifomycin sv\", \"tuborin\")" 0.6 "g" "character(0)"
"RFP" 135403821 "Rifapentine" "Antimycobacterials" "J04AB05" "Drugs for treatment of tuberculosis" "Antibiotics" "rifp" "c(\"cyclopentyl rifampin\", \"priftin\", \"rifapentin\", \"rifapentina\", \"rifapentine\", \"rifapentinum\")" 0.11 "g" "character(0)"
"RFP" 135403821 "Rifapentine" "Antimycobacterials" "J04AB05" "Drugs for treatment of tuberculosis" "Antibiotics" "c(\"rifp\", \"rpt\")" "c(\"cyclopentyl rifampin\", \"priftin\", \"rifapentin\", \"rifapentina\", \"rifapentine\", \"rifapentinum\")" 0.11 "g" "character(0)"
"RFX" 6436173 "Rifaximin" "Other antibacterials" "c(\"A07AA11\", \"D06AX11\")" "Intestinal antiinfectives" "Antibiotics" "" "c(\"fatroximin\", \"flonorm\", \"lormyx\", \"lumenax\", \"normix\", \"redactiv\", \"rifacol\", \"rifamixin\", \"rifaxidin\", \"rifaximin\", \"rifaximina\", \"rifaximine\", \"rifaximinum\", \"rifaxin\", \"ritacol\", \"spiraxin\", \"xifaxan\", \"xifaxsan\")" 0.6 "g" "character(0)"
"RIT" 65633 "Ritipenem" "Carbapenems" "" "ritipenem" "character(0)"
"RIA" 163692 "Ritipenem acoxil" "Carbapenems" "" "ritipenem acoxil" "character(0)"
@ -500,7 +507,7 @@
"TVA" 62959 "Trovafloxacin" "Quinolones" "J01MA13" "Quinolone antibacterials" "Fluoroquinolones" "c(\"\", \"trov\")" "c(\"trovafloxacin\", \"trovan\")" 0.2 "g" 0.2 "g" "character(0)"
"TUL" 9832301 "Tulathromycin" "Macrolides/lincosamides" "" "c(\"draxxin\", \"tulathrmycin a\", \"tulathromycin\", \"tulathromycin a\")" "character(0)"
"TYL" 5280440 "Tylosin" "Macrolides/lincosamides" "" "c(\"fradizine\", \"tilosina\", \"tylocine\", \"tylosin\", \"tylosin a\", \"tylosine\", \"tylosinum\")" "87587-2"
"TYL1" 6441094 "Tylvalosin" "Macrolides/lincosamides" "" "" ""
"TYL1" 6441094 "Tylvalosin" "Macrolides/lincosamides" "c(\"\", \"tvn\")" "" ""
"PRU1" 124225 "Ulifloxacin (Prulifloxacin)" "Other antibacterials" "" "ulifloxacin" "character(0)"
"VAN" 14969 "Vancomycin" "Glycopeptides" "c(\"A07AA09\", \"J01XA01\", \"S01AA28\")" "Other antibacterials" "Glycopeptide antibacterials" "c(\"va\", \"van\", \"vanc\")" "c(\"vancocin\", \"vancocin hcl\", \"vancoled\", \"vancomicina\", \"vancomycin\", \"vancomycin hcl\", \"vancomycine\", \"vancomycinum\", \"vancor\", \"viomycin derivative\")" 2 "g" 2 "g" "c(\"13586-3\", \"13587-1\", \"20578-1\", \"31012-8\", \"39092-2\", \"39796-8\", \"39797-6\", \"4089-9\", \"4090-7\", \"4091-5\", \"4092-3\", \"50938-0\", \"59381-4\")"
"VAM" "Vancomycin-macromethod" "Glycopeptides" "" "" ""
@ -509,3 +516,4 @@
"VOR" 71616 "Voriconazole" "Antifungals/antimycotics" "J02AC03" "Antimycotics for systemic use" "Triazole derivatives" "c(\"vori\", \"vrc\")" "c(\"pfizer\", \"vfend i.v.\", \"voriconazol\", \"voriconazole\", \"voriconazolum\", \"vorikonazole\")" 0.4 "g" 0.4 "g" "c(\"38370-3\", \"53902-3\", \"73676-9\", \"80553-1\", \"80651-3\")"
"XBR" 72144 "Xibornol" "Other antibacterials" "J01XX02" "Other antibacterials" "Other antibacterials" "" "c(\"bactacine\", \"bracen\", \"nanbacine\", \"xibornol\", \"xibornolo\", \"xibornolum\")" "character(0)"
"ZID" 77846445 "Zidebactam" "Other antibacterials" "" "zidebactam" "character(0)"
"ZFD" "Zoliflodacin" "" "" ""

23
data-raw/reproduction_of_antibiotics.R
View File

@ -461,7 +461,7 @@ antibiotics[which(antibiotics$ab == "MEZ"), "abbreviations"][[1]] <- list(c(anti
antibiotics[which(antibiotics$ab == "MIF"), "abbreviations"][[1]] <- list(c(antibiotics[which(antibiotics$ab == "MIF"), "abbreviations"][[1]], "mica"))
antibiotics[which(antibiotics$ab == "MCZ"), "abbreviations"][[1]] <- list(c(antibiotics[which(antibiotics$ab == "MCZ"), "abbreviations"][[1]], "mico"))
antibiotics[which(antibiotics$ab == "MNO"), "abbreviations"][[1]] <- list(c(antibiotics[which(antibiotics$ab == "MNO"), "abbreviations"][[1]], "mino"))
antibiotics[which(antibiotics$ab == "LTM"), "abbreviations"][[1]] <- list(c(antibiotics[which(antibiotics$ab == "LTM"), "abbreviations"][[1]], "moxa"))
antibiotics[which(antibiotics$ab == "LTM"), "abbreviations"][[1]] <- list(c(antibiotics[which(antibiotics$ab == "LTM"), "abbreviations"][[1]], "moxa", "moxalactam"))
antibiotics[which(antibiotics$ab == "MFX"), "abbreviations"][[1]] <- list(c(antibiotics[which(antibiotics$ab == "MFX"), "abbreviations"][[1]], "moxi"))
antibiotics[which(antibiotics$ab == "NAL"), "abbreviations"][[1]] <- list(c(antibiotics[which(antibiotics$ab == "NAL"), "abbreviations"][[1]], "nali"))
antibiotics[which(antibiotics$ab == "NEO"), "abbreviations"][[1]] <- list(c(antibiotics[which(antibiotics$ab == "NEO"), "abbreviations"][[1]], "neom"))
@ -516,6 +516,10 @@ antibiotics[which(antibiotics$ab == "FOS"), "synonyms"][[1]] <- list(sort(c(anti
antibiotics[which(antibiotics$ab == "TZP"), "abbreviations"][[1]] <- list(sort(c(antibiotics[which(antibiotics$ab == "TZP"), "abbreviations"][[1]], "piptazo")))
antibiotics[which(antibiotics$ab == "RFP"), "abbreviations"][[1]] <- list(sort(c(antibiotics[which(antibiotics$ab == "RFP"), "abbreviations"][[1]], "RPT")))
antibiotics[which(antibiotics$ab == "RTP"), "abbreviations"][[1]] <- list(sort(c(antibiotics[which(antibiotics$ab == "RTP"), "abbreviations"][[1]], "RET")))
antibiotics[which(antibiotics$ab == "TYL1"), "abbreviations"][[1]] <- list(sort(c(antibiotics[which(antibiotics$ab == "TYL1"), "abbreviations"][[1]], "TVN")))
antibiotics <- antibiotics %>%
mutate(ab = as.character(ab)) %>%
rbind(antibiotics %>%
@ -595,6 +599,23 @@ antibiotics[which(antibiotics$ab == "CZA"), "synonyms"] <- list(c("Avycaz", "Zav
antibiotics[which(antibiotics$ab == "RXT"), "name"] <- "Roxithromycin"
antibiotics[which(antibiotics$ab == "PEN"), "atc"] <- "J01CE01"
# WHONET cleanup
antibiotics[which(antibiotics$ab == "BCZ"), "name"] <- "Bicyclomycin"
antibiotics[which(antibiotics$ab == "CCL"), "name"] <- "Cefetecol"
antibiotics[which(antibiotics$ab == "ENV"), "name"] <- "Enviomycin"
antibiotics[which(antibiotics$ab == "KIT"), "name"] <- "Kitasamycin"
antibiotics[which(antibiotics$ab == "LSP"), "name"] <- "Linco-spectin"
antibiotics[which(antibiotics$ab == "MEC"), "name"] <- "Mecillinam"
antibiotics[which(antibiotics$ab == "PMR"), "name"] <- "Pimaricin"
antibiotics[which(antibiotics$ab == "BCZ"), "abbreviations"][[1]] <- list(sort(unique(c(antibiotics[which(antibiotics$ab == "BCZ"), "abbreviations"][[1]], "Bicozamycin"))))
antibiotics[which(antibiotics$ab == "CCL"), "abbreviations"][[1]] <- list(sort(unique(c(antibiotics[which(antibiotics$ab == "CCL"), "abbreviations"][[1]], "Cefcatacol"))))
antibiotics[which(antibiotics$ab == "ENV"), "abbreviations"][[1]] <- list(sort(unique(c(antibiotics[which(antibiotics$ab == "ENV"), "abbreviations"][[1]], "Tuberactinomycin"))))
antibiotics[which(antibiotics$ab == "KIT"), "abbreviations"][[1]] <- list(sort(unique(c(antibiotics[which(antibiotics$ab == "KIT"), "abbreviations"][[1]], "Leucomycin"))))
antibiotics[which(antibiotics$ab == "LSP"), "abbreviations"][[1]] <- list(sort(unique(c(antibiotics[which(antibiotics$ab == "LSP"), "abbreviations"][[1]], "lincomycin/spectinomycin"))))
antibiotics[which(antibiotics$ab == "MEC"), "abbreviations"][[1]] <- list(sort(unique(c(antibiotics[which(antibiotics$ab == "MEC"), "abbreviations"][[1]], "Amdinocillin"))))
antibiotics[which(antibiotics$ab == "PMR"), "abbreviations"][[1]] <- list(sort(unique(c(antibiotics[which(antibiotics$ab == "PMR"), "abbreviations"][[1]], "Natamycin"))))
# set cephalosporins groups for the ones that could not be determined automatically:
antibiotics <- antibiotics %>%
mutate(group = case_when(

2
data-raw/reproduction_of_intrinsic_resistant.R
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@ -42,7 +42,7 @@ int_resis2 <- int_resis[, sapply(int_resis, function(x) any(!is.rsi(x) | x == "R
select(microorganism, antibiotic = name)
# remove lab drugs
untreatable <- antibiotics[which(antibiotics$name %like% "-high|EDTA|polysorbate|macromethod|screening"), "name", drop = TRUE]
untreatable <- antibiotics[which(antibiotics$name %like% "-high|EDTA|polysorbate|macromethod|screening|/nacubactam"), "name", drop = TRUE]
int_resis2 <- int_resis2 %>%
filter(!antibiotic %in% untreatable) %>%
arrange(microorganism, antibiotic)

175
data-raw/reproduction_of_rsi_translation.R
View File

@ -23,116 +23,95 @@
# how to conduct AMR data analysis: https://msberends.github.io/AMR/ #
# ==================================================================== #
# This script runs in under a minute and renews all guidelines of CLSI and EUCAST!
library(dplyr)
library(readr)
library(tidyr)
library(AMR)
# Installed WHONET software on Windows (http://www.whonet.org/software.html),
# imported C:\WHONET\Codes\DRGLST1.txt
DRGLST1 <- readr::read_tsv("data-raw/DRGLST1.txt", na = c("", "NA", "-"))
rsi_trans <- DRGLST1 %>%
# only keep CLSI and EUCAST guidelines:
filter(GUIDELINES %like% "^(CLSI|EUCST)")
if (any(is.na(rsi_trans$BREAKPOINT_TYPE)) | !"Human" %in% rsi_trans$BREAKPOINT_TYPE) {
stop("Check column BREAKPOINT_TYPE - something is WRONG!")
}
sort(unique(rsi_trans$GUIDELINES))
rsi_trans <- rsi_trans %>%
##### If looking for adding a specific guideline, do it here!
filter(GUIDELINES == "CLSI21") %>%
#####
filter(BREAKPOINT_TYPE == "Human") %>%
mutate(DISK_S = ifelse(as.double(DISK_S) > 50, 50, DISK_S),
MIC_R = ifelse(as.double(MIC_R) %in% c(1025, 129, 513), as.double(MIC_R) - 1, MIC_R)) %>%
# set a nice layout:
transmute(guideline = gsub("([0-9]+)$", " 20\\1", gsub("EUCST", "EUCAST", GUIDELINES)),
method = TESTMETHOD,
site = SITE_INF,
mo = as.mo(ORG_CODE),
ab = as.ab(WHON5_CODE),
ref_tbl = REF_TABLE,
dose_disk = POTENCY,
S_disk = as.disk(DISK_S),
R_disk = as.disk(DISK_R),
S_mic = as.mic(MIC_S),
R_mic = as.mic(MIC_R)) %>%
filter(!is.na(mo),
!is.na(ab),
!mo %in% c("UNKNOWN", "B_GRAMN", "B_GRAMP", "F_FUNGUS", "F_YEAST")) %>%
arrange(desc(guideline), mo, ab)
# Install the WHONET software on Windows (http://www.whonet.org/software.html),
# and copy the folder C:\WHONET\Codes to data-raw/WHONET/Codes
DRGLST <- readr::read_tsv("data-raw/WHONET/Codes/DRGLST.txt", na = c("", "NA", "-"))
DRGLST1 <- readr::read_tsv("data-raw/WHONET/Codes/DRGLST1.txt", na = c("", "NA", "-"))
ORGLIST <- readr::read_tsv("data-raw/WHONET/Codes/ORGLIST.txt", na = c("", "NA", "-"))
print(mo_failures())
# create 2 tables: MIC and disk
tbl_mic <- rsi_trans %>%
filter(method == "MIC") %>%
mutate(breakpoint_S = as.double(S_mic), breakpoint_R = as.double(R_mic))
tbl_disk <- rsi_trans %>%
filter(method == "DISK") %>%
mutate(breakpoint_S = as.double(S_disk), breakpoint_R = as.double(R_disk))
# merge them so every record is a unique combination of method, mo and ab
rsi_trans <- bind_rows(tbl_mic, tbl_disk) %>%
rename(disk_dose = dose_disk) %>%
mutate(disk_dose = gsub("µ", "u", disk_dose)) %>%
select(-ends_with("_mic"), -ends_with("_disk"))
# add extra CLSI general guidelines
# Installed WHONET software on Windows (http://www.whonet.org/software.html),
# imported C:\WHONET\Codes\DRGLST.txt
clsi_general <- readr::read_tsv("data-raw/DRGLST.txt") %>%
filter(CLSI == "X") %>%
select(WHON5_CODE,
disk_dose = POTENCY,
starts_with("CLSI"),
-c(CLSI, CLSI_ORDER)) %>%
mutate_at(vars(matches("CLSI")), as.double) %>%
pivot_longer(-c(WHON5_CODE, disk_dose)) %>%
mutate(method = ifelse(name %like% "_D", "DISK", "MIC"),
breakpoint = paste0("breakpoint_", gsub(".*([A-Z])$", "\\1", name)),
guideline = paste0("CLSI 20", cleaner::clean_integer(name))) %>%
filter(breakpoint != "breakpoint_I", !is.na(value)) %>%
select(-name) %>%
pivot_wider(names_from = breakpoint, values_from = value) %>%
transmute(guideline,
# create data set for generic rules (i.e., AB-specific but not MO-specific)
rsi_generic <- DRGLST %>%
filter(CLSI == "X" | EUCST == "X") %>%
select(ab = ANTIBIOTIC, disk_dose = POTENCY, matches("^(CLSI|EUCST)[0-9]")) %>%
mutate(ab = as.ab(ab),
across(matches("(CLSI|EUCST)"), as.double)) %>%
pivot_longer(-c(ab, disk_dose), names_to = "method") %>%
separate(method, into = c("guideline", "method"), sep = "_") %>%
mutate(method = ifelse(method %like% "D",
gsub("D", "DISK_", method, fixed = TRUE),
gsub("M", "MIC_", method, fixed = TRUE))) %>%
separate(method, into = c("method", "rsi"), sep = "_") %>%
# I is in the middle, so we only need R and S (saves data)
filter(rsi %in% c("R", "S")) %>%
pivot_wider(names_from = rsi, values_from = value) %>%
transmute(guideline = gsub("([0-9]+)$", " 20\\1", gsub("EUCST", "EUCAST", guideline)),
method,
site = NA_character_,
mo = as.mo("UNKNOWN"),
ab,
ref_tbl = "Generic rules",
disk_dose,
breakpoint_S = S,
breakpoint_R = R,
uti = FALSE) %>%
filter(!(is.na(breakpoint_S) & is.na(breakpoint_R)), !is.na(mo), !is.na(ab))
rsi_generic
# create data set for AB-specific and MO-specific rules
rsi_specific <- DRGLST1 %>%
# only support guidelines for humans (for now)
filter(HOST == "Human" & SITE_INF %unlike% "canine|feline",
# only CLSI and EUCAST
GUIDELINES %like% "(CLSI|EUCST)") %>%
# get microorganism names from another WHONET table
mutate(ORG_CODE = tolower(ORG_CODE)) %>%
left_join(ORGLIST %>%
transmute(ORG_CODE = tolower(ORG),
SCT_TEXT = case_when(is.na(SCT_TEXT) & is.na(ORGANISM) ~ ORG_CODE,
is.na(SCT_TEXT) ~ ORGANISM,
TRUE ~ SCT_TEXT)) %>%
# WHO for 'Generic'
bind_rows(tibble(ORG_CODE = "gen", SCT_TEXT = "Unknown")) %>%
# WHO for 'Enterobacterales'
bind_rows(tibble(ORG_CODE = "ebc", SCT_TEXT = "Enterobacterales"))
) %>%
# still some manual cleaning required
filter(!SCT_TEXT %in% c("Anaerobic Actinomycetes")) %>%
transmute(guideline = gsub("([0-9]+)$", " 20\\1", gsub("EUCST", "EUCAST", GUIDELINES)),
method = toupper(TESTMETHOD),
site = SITE_INF,
mo = as.mo(SCT_TEXT),
ab = as.ab(WHON5_CODE),
ref_tbl = "Generic CLSI rules",
disk_dose = gsub("/", "-", disk_dose, fixed = TRUE),
breakpoint_S,
breakpoint_R)
ref_tbl = REF_TABLE,
disk_dose = POTENCY,
breakpoint_S = as.double(ifelse(method == "DISK", DISK_S, MIC_S)),
breakpoint_R = as.double(ifelse(method == "DISK", DISK_R, MIC_R)),
uti = site %like% "(UTI|urinary|urine)") %>%
filter(!(is.na(breakpoint_S) & is.na(breakpoint_R)), !is.na(mo), !is.na(ab))
rsi_specific
# add new EUCAST with read_EUCAST.R
# 2020-04-14 did that now for 2019 and 2020
rsi_trans <- rsi_trans %>%
filter(guideline != "EUCAST 2019") %>%
bind_rows(new_EUCAST) %>%
bind_rows(clsi_general) %>%
mutate(uti = site %like% "(UTI|urinary|urine)") %>%
as.data.frame(stringsAsFactors = FALSE) %>%
# force classes again
mutate(mo = as.mo(mo),
ab = as.ab(ab)) %>%
arrange(desc(guideline), ab, mo, method)
# 2021-01-12 did that now for 2021
rsi_trans <- rsi_trans %>%
mutate(mo = as.character(mo)) %>%
bind_rows(new_EUCAST) %>%
mutate(uti = site %like% "(UTI|urinary)") %>%
as.data.frame(stringsAsFactors = FALSE) %>%
# force classes again
mutate(mo = as.mo(mo),
ab = as.ab(ab)) %>%
arrange(desc(guideline), ab, mo, method)
rsi_translation <- rsi_generic %>%
bind_rows(rsi_specific) %>%
# add the taxonomic rank index, used for sorting (so subspecies match first, order matches last)
mutate(rank_index = case_when(mo_rank(mo) %like% "(infra|sub)" ~ 1,
mo_rank(mo) == "species" ~ 2,
mo_rank(mo) == "genus" ~ 3,
mo_rank(mo) == "family" ~ 4,
mo_rank(mo) == "order" ~ 5,
TRUE ~ 6),
.after = mo) %>%
arrange(desc(guideline), ab, mo, method) %>%
distinct(guideline, ab, mo, method, site, .keep_all = TRUE) %>%
as.data.frame(stringsAsFactors = FALSE)
# save to package
rsi_translation <- rsi_trans
usethis::use_data(rsi_translation, overwrite = TRUE)
rm(rsi_trans)
rm(rsi_translation)
devtools::load_all(".")

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@ -33,8 +33,8 @@ vegetative TRUE TRUE FALSE FALSE vegetativ vegetatief vegetativo vegetativo vég
no .*growth TRUE FALSE FALSE FALSE keine? .*wachstum geen .*groei no .*crecimientonon sem .*crescimento pas .*croissance sem .*crescimento ingen .*vækst ingen .*tillväxt отсутствие.*роста
no|not TRUE FALSE FALSE FALSE keine? geen|niet no|sin sem non sem nej|ikke nej|inte нет?
Intermediate TRUE FALSE FALSE FALSE Mittlere Intermediair Intermedio
Susceptible, incr. exp. FALSE TRUE FALSE FALSE Empfindlich, erh Belastung Gevoelig, hoge dosis
susceptible, incr. exp. FALSE TRUE FALSE FALSE empfindlich, erh Belastung gevoelig, hoge dosis
Susceptible, incr. exp. FALSE TRUE FALSE FALSE Empfindlich, erh Belastung Gevoelig bij verh. blootstelling
susceptible, incr. exp. FALSE TRUE FALSE FALSE empfindlich, erh Belastung gevoelig bij verh. blootstelling
Susceptible TRUE FALSE FALSE FALSE Empfindlich Gevoelig Susceptible
Incr. exposure TRUE FALSE FALSE FALSE Empfindlich, erh Belastung 'Incr. exposure' 'Incr. exposure'
Resistant TRUE FALSE FALSE FALSE Resistent Resistent Resistente

1 pattern regular_expr case_sensitive affect_ab_name affect_mo_name de nl es it fr pt da sv ru
33 no .*growth TRUE FALSE FALSE FALSE keine? .*wachstum geen .*groei no .*crecimientonon sem .*crescimento pas .*croissance sem .*crescimento ingen .*vækst ingen .*tillväxt отсутствие.*роста
34 no|not TRUE FALSE FALSE FALSE keine? geen|niet no|sin sem non sem nej|ikke nej|inte нет?
35 Intermediate TRUE FALSE FALSE FALSE Mittlere Intermediair Intermedio
36 Susceptible, incr. exp. FALSE TRUE FALSE FALSE Empfindlich, erh Belastung Gevoelig, hoge dosis Gevoelig bij verh. blootstelling
37 susceptible, incr. exp. FALSE TRUE FALSE FALSE empfindlich, erh Belastung gevoelig, hoge dosis gevoelig bij verh. blootstelling
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

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@ -43,7 +43,7 @@
</button>
<span class="navbar-brand">
<a class="navbar-link" href="https://msberends.github.io/AMR/index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>

2
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@ -17,7 +17,7 @@
</button>
<span class="navbar-brand">
<a class="navbar-link" href="index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>

119
docs/articles/benchmarks.html
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@ -44,7 +44,7 @@
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>
@ -222,23 +222,23 @@
<span class="fu"><a href="../reference/as.mo.html">as.mo</a></span><span class="op">(</span><span class="st">"MRSA"</span><span class="op">)</span>, <span class="co"># Methicillin Resistant S. aureus</span>
<span class="fu"><a href="../reference/as.mo.html">as.mo</a></span><span class="op">(</span><span class="st">"VISA"</span><span class="op">)</span>, <span class="co"># Vancomycin Intermediate S. aureus</span>
times <span class="op">=</span> <span class="fl">25</span><span class="op">)</span>
<span class="fu"><a href="https://docs.ropensci.org/skimr/reference/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">S.aureus</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">2</span><span class="op">)</span>
<span class="fu"><a href="https://rdrr.io/r/base/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">S.aureus</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">2</span><span class="op">)</span>
<span class="co"># Unit: milliseconds</span>
<span class="co"># expr min lq mean median uq max neval</span>
<span class="co"># as.mo("sau") 12.0 14.0 24.0 15.0 42 64 25</span>
<span class="co"># as.mo("stau") 49.0 62.0 79.0 77.0 98 120 25</span>
<span class="co"># as.mo("STAU") 53.0 59.0 76.0 66.0 92 120 25</span>
<span class="co"># as.mo("staaur") 12.0 14.0 19.0 15.0 17 53 25</span>
<span class="co"># as.mo("STAAUR") 12.0 13.0 18.0 14.0 16 54 25</span>
<span class="co"># as.mo("S. aureus") 27.0 32.0 41.0 33.0 39 79 25</span>
<span class="co"># as.mo("S aureus") 26.0 31.0 45.0 34.0 67 79 25</span>
<span class="co"># as.mo("Staphylococcus aureus") 3.7 4.4 8.8 4.7 5 45 25</span>
<span class="co"># as.mo("Staphylococcus aureus (MRSA)") 250.0 260.0 280.0 280.0 300 330 25</span>
<span class="co"># as.mo("Sthafilokkockus aaureuz") 170.0 200.0 230.0 220.0 240 330 25</span>
<span class="co"># as.mo("MRSA") 12.0 13.0 18.0 15.0 16 53 25</span>
<span class="co"># as.mo("VISA") 21.0 26.0 44.0 33.0 62 78 25</span></code></pre></div>
<span class="co"># as.mo("sau") 11.0 12.0 18.0 14 15.0 59 25</span>
<span class="co"># as.mo("stau") 51.0 55.0 74.0 87 91.0 97 25</span>
<span class="co"># as.mo("STAU") 51.0 55.0 78.0 65 92.0 200 25</span>
<span class="co"># as.mo("staaur") 12.0 14.0 20.0 15 18.0 52 25</span>
<span class="co"># as.mo("STAAUR") 10.0 12.0 16.0 13 14.0 61 25</span>
<span class="co"># as.mo("S. aureus") 26.0 27.0 42.0 31 63.0 68 25</span>
<span class="co"># as.mo("S aureus") 25.0 28.0 39.0 32 39.0 78 25</span>
<span class="co"># as.mo("Staphylococcus aureus") 3.1 3.8 5.6 4 4.6 42 25</span>
<span class="co"># as.mo("Staphylococcus aureus (MRSA)") 240.0 250.0 270.0 260 270.0 360 25</span>
<span class="co"># as.mo("Sthafilokkockus aaureuz") 160.0 190.0 200.0 200 220.0 260 25</span>
<span class="co"># as.mo("MRSA") 11.0 12.0 18.0 12 14.0 51 25</span>
<span class="co"># as.mo("VISA") 21.0 22.0 32.0 23 54.0 69 25</span></code></pre></div>
<p><img src="benchmarks_files/figure-html/unnamed-chunk-4-1.png" width="750"></p>
<p>In the table above, all measurements are shown in milliseconds (thousands of seconds). A value of 5 milliseconds means it can determine 200 input values per second. It case of 200 milliseconds, this is only 5 input values per second. It is clear that accepted taxonomic names are extremely fast, but some variations are up to 200 times slower to determine.</p>
<p>In the table above, all measurements are shown in milliseconds (thousands of seconds). A value of 5 milliseconds means it can determine 200 input values per second. It case of 200 milliseconds, this is only 5 input values per second. It is clear that accepted taxonomic names are extremely fast, but some variations are up to 66 times slower to determine.</p>
<p>To improve performance, we implemented two important algorithms to save unnecessary calculations: <strong>repetitive results</strong> and <strong>already precalculated results</strong>.</p>
<div class="section level3">
<h3 id="repetitive-results">Repetitive results<a class="anchor" aria-label="anchor" href="#repetitive-results"></a>
@ -258,8 +258,8 @@
<span class="co"># what do these values look like? They are of class &lt;mo&gt;:</span>
<span class="fu"><a href="https://rdrr.io/r/utils/head.html" class="external-link">head</a></span><span class="op">(</span><span class="va">x</span><span class="op">)</span>
<span class="co"># Class &lt;mo&gt;</span>
<span class="co"># [1] B_STPHY_EPDR B_STRPT_GRPA B_STPHY_AURS F_CANDD_GLBR F_CANDD </span>
<span class="co"># [6] B_STRPT_ANGN</span>
<span class="co"># [1] B_STRPT_EQUI B_STPHY_CONS B_ESCHR_COLI B_ENTRC_FACM B_STPHY_CONS</span>
<span class="co"># [6] B_ESCHR_COLI</span>
<span class="co"># as the example_isolates data set has 2,000 rows, we should have 2 million items</span>
<span class="fu"><a href="https://rdrr.io/r/base/length.html" class="external-link">length</a></span><span class="op">(</span><span class="va">x</span><span class="op">)</span>
@ -272,11 +272,11 @@
<span class="co"># now let's see:</span>
<span class="va">run_it</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/pkg/microbenchmark/man/microbenchmark.html" class="external-link">microbenchmark</a></span><span class="op">(</span><span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="va">x</span><span class="op">)</span>,
times <span class="op">=</span> <span class="fl">10</span><span class="op">)</span>
<span class="fu"><a href="https://docs.ropensci.org/skimr/reference/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">run_it</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">3</span><span class="op">)</span>
<span class="fu"><a href="https://rdrr.io/r/base/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">run_it</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">3</span><span class="op">)</span>
<span class="co"># Unit: milliseconds</span>
<span class="co"># expr min lq mean median uq max neval</span>
<span class="co"># mo_name(x) 232 245 327 353 384 449 10</span></code></pre></div>
<p>So getting official taxonomic names of 2,000,000 (!!) items consisting of 90 unique values only takes 0.353 seconds. That is 177 nanoseconds on average. You only lose time on your unique input values.</p>
<span class="co"># mo_name(x) 203 230 308 299 385 409 10</span></code></pre></div>
<p>So getting official taxonomic names of 2,000,000 (!!) items consisting of 90 unique values only takes 0.299 seconds. That is 149 nanoseconds on average. You only lose time on your unique input values.</p>
</div>
<div class="section level3">
<h3 id="precalculated-results">Precalculated results<a class="anchor" aria-label="anchor" href="#precalculated-results"></a>
@ -287,13 +287,13 @@
B <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="st">"S. aureus"</span><span class="op">)</span>,
C <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="st">"Staphylococcus aureus"</span><span class="op">)</span>,
times <span class="op">=</span> <span class="fl">10</span><span class="op">)</span>
<span class="fu"><a href="https://docs.ropensci.org/skimr/reference/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">run_it</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">3</span><span class="op">)</span>
<span class="fu"><a href="https://rdrr.io/r/base/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">run_it</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">3</span><span class="op">)</span>
<span class="co"># Unit: milliseconds</span>
<span class="co"># expr min lq mean median uq max neval</span>
<span class="co"># A 8.02 9.04 9.19 9.33 9.65 10.0 10</span>
<span class="co"># B 24.00 26.60 33.10 27.50 27.80 78.7 10</span>
<span class="co"># C 2.20 2.41 7.64 2.57 2.66 53.6 10</span></code></pre></div>
<p>So going from <code>mo_name("Staphylococcus aureus")</code> to <code>"Staphylococcus aureus"</code> takes 0.0026 seconds - it doesn’t even start calculating <em>if the result would be the same as the expected resulting value</em>. That goes for all helper functions:</p>
<span class="co"># A 8.02 8.23 8.77 8.88 9.17 9.32 10</span>
<span class="co"># B 22.20 22.80 37.70 26.50 37.70 78.20 10</span>
<span class="co"># C 2.15 2.20 2.39 2.39 2.49 2.74 10</span></code></pre></div>
<p>So going from <code>mo_name("Staphylococcus aureus")</code> to <code>"Staphylococcus aureus"</code> takes 0.0024 seconds - it doesn’t even start calculating <em>if the result would be the same as the expected resulting value</em>. That goes for all helper functions:</p>
<div class="sourceCode" id="cb5"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span class="va">run_it</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/pkg/microbenchmark/man/microbenchmark.html" class="external-link">microbenchmark</a></span><span class="op">(</span>A <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_species</a></span><span class="op">(</span><span class="st">"aureus"</span><span class="op">)</span>,
B <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_genus</a></span><span class="op">(</span><span class="st">"Staphylococcus"</span><span class="op">)</span>,
@ -304,52 +304,63 @@
G <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_phylum</a></span><span class="op">(</span><span class="st">"Firmicutes"</span><span class="op">)</span>,
H <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_kingdom</a></span><span class="op">(</span><span class="st">"Bacteria"</span><span class="op">)</span>,
times <span class="op">=</span> <span class="fl">10</span><span class="op">)</span>
<span class="fu"><a href="https://docs.ropensci.org/skimr/reference/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">run_it</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">3</span><span class="op">)</span>
<span class="fu"><a href="https://rdrr.io/r/base/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">run_it</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">3</span><span class="op">)</span>
<span class="co"># Unit: milliseconds</span>
<span class="co"># expr min lq mean median uq max neval</span>
<span class="co"># A 1.52 1.69 2.40 1.92 3.43 4.28 10</span>
<span class="co"># B 1.37 1.39 1.83 1.70 1.74 3.61 10</span>
<span class="co"># C 1.41 1.72 2.17 2.00 2.51 3.34 10</span>
<span class="co"># D 1.39 1.43 1.63 1.61 1.73 2.10 10</span>
<span class="co"># E 1.40 1.71 1.82 1.75 2.13 2.26 10</span>
<span class="co"># F 1.36 1.40 1.70 1.66 1.93 2.27 10</span>
<span class="co"># G 1.38 1.68 2.32 1.71 3.56 4.41 10</span>
<span class="co"># H 1.36 1.64 2.06 1.69 2.25 3.59 10</span></code></pre></div>
<span class="co"># A 1.73 1.85 2.08 2.01 2.13 3.02 10</span>
<span class="co"># B 1.68 1.76 2.00 1.99 2.11 2.43 10</span>
<span class="co"># C 1.74 1.99 2.00 2.02 2.05 2.20 10</span>
<span class="co"># D 1.73 1.86 1.99 2.03 2.08 2.22 10</span>
<span class="co"># E 1.75 1.82 1.98 2.02 2.10 2.27 10</span>
<span class="co"># F 1.74 1.95 1.93 1.97 1.97 2.02 10</span>
<span class="co"># G 1.71 1.76 1.95 1.98 1.99 2.56 10</span>
<span class="co"># H 1.72 1.83 1.93 1.98 2.00 2.05 10</span></code></pre></div>
<p>Of course, when running <code>mo_phylum("Firmicutes")</code> the function has zero knowledge about the actual microorganism, namely <em>S. aureus</em>. But since the result would be <code>"Firmicutes"</code> anyway, there is no point in calculating the result. And because this package contains all phyla of all known bacteria, it can just return the initial value immediately.</p>
</div>
<div class="section level3">
<h3 id="results-in-other-languages">Results in other languages<a class="anchor" aria-label="anchor" href="#results-in-other-languages"></a>
</h3>
<p>When the system language is non-English and supported by this <code>AMR</code> package, some functions will have a translated result. This almost does’t take extra time:</p>
<p>When the system language is non-English and supported by this <code>AMR</code> package, some functions will have a translated result. This almost does’t take extra time (compare “en” from the table below with the other languages):</p>
<div class="sourceCode" id="cb6"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span class="fu"><a href="../reference/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"># or just mo_name("CoNS") on an English system</span>
<code class="sourceCode R"><span class="va">CoNS</span> <span class="op">&lt;-</span> <span class="fu"><a href="../reference/as.mo.html">as.mo</a></span><span class="op">(</span><span class="st">"CoNS"</span><span class="op">)</span>
<span class="va">CoNS</span>
<span class="co"># Class &lt;mo&gt;</span>
<span class="co"># [1] B_STPHY_CONS</span>
<span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="va">CoNS</span>, language <span class="op">=</span> <span class="st">"en"</span><span class="op">)</span> <span class="co"># or just mo_name(CoNS) on an English system</span>
<span class="co"># [1] "Coagulase-negative Staphylococcus (CoNS)"</span>
<span class="fu"><a href="../reference/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"># or just mo_name("CoNS") on a Spanish system</span>
<span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="va">CoNS</span>, language <span class="op">=</span> <span class="st">"es"</span><span class="op">)</span> <span class="co"># or just mo_name(CoNS) on a Spanish system</span>
<span class="co"># [1] "Staphylococcus coagulasa negativo (SCN)"</span>
<span class="fu"><a href="../reference/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"># or just mo_name("CoNS") on a Dutch system</span>
<span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="va">CoNS</span>, language <span class="op">=</span> <span class="st">"nl"</span><span class="op">)</span> <span class="co"># or just mo_name(CoNS) on a Dutch system</span>
<span class="co"># [1] "Coagulase-negatieve Staphylococcus (CNS)"</span>
<span class="va">run_it</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/pkg/microbenchmark/man/microbenchmark.html" class="external-link">microbenchmark</a></span><span class="op">(</span>en <span class="op">=</span> <span class="fu"><a href="../reference/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>,
de <span class="op">=</span> <span class="fu"><a href="../reference/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>,
nl <span class="op">=</span> <span class="fu"><a href="../reference/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>,
es <span class="op">=</span> <span class="fu"><a href="../reference/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>,
it <span class="op">=</span> <span class="fu"><a href="../reference/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>,
fr <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="st">"CoNS"</span>, language <span class="op">=</span> <span class="st">"fr"</span><span class="op">)</span>,
pt <span class="op">=</span> <span class="fu"><a href="../reference/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="va">run_it</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/pkg/microbenchmark/man/microbenchmark.html" class="external-link">microbenchmark</a></span><span class="op">(</span>da <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="va">CoNS</span>, language <span class="op">=</span> <span class="st">"da"</span><span class="op">)</span>,
de <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="va">CoNS</span>, language <span class="op">=</span> <span class="st">"de"</span><span class="op">)</span>,
en <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="va">CoNS</span>, language <span class="op">=</span> <span class="st">"en"</span><span class="op">)</span>,
es <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="va">CoNS</span>, language <span class="op">=</span> <span class="st">"es"</span><span class="op">)</span>,
fr <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="va">CoNS</span>, language <span class="op">=</span> <span class="st">"fr"</span><span class="op">)</span>,
it <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="va">CoNS</span>, language <span class="op">=</span> <span class="st">"it"</span><span class="op">)</span>,
nl <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="va">CoNS</span>, language <span class="op">=</span> <span class="st">"nl"</span><span class="op">)</span>,
pt <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="va">CoNS</span>, language <span class="op">=</span> <span class="st">"pt"</span><span class="op">)</span>,
ru <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="va">CoNS</span>, language <span class="op">=</span> <span class="st">"ru"</span><span class="op">)</span>,
sv <span class="op">=</span> <span class="fu"><a href="../reference/mo_property.html">mo_name</a></span><span class="op">(</span><span class="va">CoNS</span>, language <span class="op">=</span> <span class="st">"sv"</span><span class="op">)</span>,
times <span class="op">=</span> <span class="fl">100</span><span class="op">)</span>
<span class="fu"><a href="https://docs.ropensci.org/skimr/reference/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">run_it</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">4</span><span class="op">)</span>
<span class="fu"><a href="https://rdrr.io/r/base/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">run_it</span>, unit <span class="op">=</span> <span class="st">"ms"</span>, signif <span class="op">=</span> <span class="fl">4</span><span class="op">)</span>
<span class="co"># Unit: milliseconds</span>
<span class="co"># expr min lq mean median uq max neval</span>
<span class="co"># en 18.80 19.08 23.94 19.62 21.69 83.41 100</span>
<span class="co"># de 30.37 30.79 39.01 31.75 35.07 112.40 100</span>
<span class="co"># nl 34.35 34.94 46.21 35.95 43.04 100.30 100</span>
<span class="co"># es 34.10 34.71 43.74 35.44 39.66 101.60 100</span>
<span class="co"># it 32.91 33.42 41.19 34.04 36.24 101.50 100</span>
<span class="co"># fr 32.18 32.87 42.84 33.76 40.21 92.48 100</span>
<span class="co"># pt 30.11 30.78 38.80 31.33 34.45 99.76 100</span></code></pre></div>
<p>Currently supported non-English languages are German, Dutch, Spanish, Italian, French and Portuguese.</p>
<span class="co"># da 1.8950 1.9550 2.702 2.0530 2.465 46.650 100</span>
<span class="co"># de 1.9030 1.9750 3.182 2.1390 2.442 52.250 100</span>
<span class="co"># en 0.8658 0.8927 1.045 0.9821 1.132 1.727 100</span>
<span class="co"># es 1.9010 1.9960 4.028 2.2770 2.498 66.860 100</span>
<span class="co"># fr 1.7650 1.8400 3.124 1.9680 2.277 54.110 100</span>
<span class="co"># it 1.8780 1.9660 2.934 2.1150 2.479 64.780 100</span>
<span class="co"># nl 1.9200 1.9780 3.355 2.0880 2.466 57.900 100</span>
<span class="co"># pt 1.8540 1.9030 2.670 2.0280 2.386 47.620 100</span>
<span class="co"># ru 1.8070 1.8950 2.240 2.2520 2.432 3.715 100</span>
<span class="co"># sv 1.8310 1.8960 2.766 2.0890 2.359 57.690 100</span></code></pre></div>
<p>Currently supported languages are “Danish”, “Dutch”, “English”, “French”, “German”, “Italian”, “Portuguese”, “Russian”, “Spanish” and “Swedish”.</p>
</div>
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</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>
@ -190,7 +190,7 @@
<div class="page-header toc-ignore">
<h1 data-toc-skip>Data sets for download / own use</h1>
<h4 data-toc-skip class="date">12 December 2021</h4>
<h4 data-toc-skip class="date">13 December 2021</h4>
<small class="dont-index">Source: <a href="https://github.com/msberends/AMR/blob/HEAD/vignettes/datasets.Rmd" class="external-link"><code>vignettes/datasets.Rmd</code></a></small>
<div class="hidden name"><code>datasets.Rmd</code></div>
@ -493,12 +493,12 @@ If you are reading this page from within R, please <a href="https://msberends.gi
<div class="section level2">
<h2 id="antibiotic-agents">Antibiotic agents<a class="anchor" aria-label="anchor" href="#antibiotic-agents"></a>
</h2>
<p>A data set with 456 rows and 14 columns, containing the following column names:<br><em>ab</em>, <em>cid</em>, <em>name</em>, <em>group</em>, <em>atc</em>, <em>atc_group1</em>, <em>atc_group2</em>, <em>abbreviations</em>, <em>synonyms</em>, <em>oral_ddd</em>, <em>oral_units</em>, <em>iv_ddd</em>, <em>iv_units</em> and <em>loinc</em>.</p>
<p>A data set with 464 rows and 14 columns, containing the following column names:<br><em>ab</em>, <em>cid</em>, <em>name</em>, <em>group</em>, <em>atc</em>, <em>atc_group1</em>, <em>atc_group2</em>, <em>abbreviations</em>, <em>synonyms</em>, <em>oral_ddd</em>, <em>oral_units</em>, <em>iv_ddd</em>, <em>iv_units</em> and <em>loinc</em>.</p>
<p>This data set is in R available as <code>antibiotics</code>, after you load the <code>AMR</code> package.</p>
<p>It was last updated on 29 November 2021 11:38:23 UTC. Find more info about the structure of this data set <a href="https://msberends.github.io/AMR/reference/antibiotics.html">here</a>.</p>
<p>It was last updated on 13 December 2021 09:13:56 UTC. Find more info about the structure of this data set <a href="https://msberends.github.io/AMR/reference/antibiotics.html">here</a>.</p>
<p><strong>Direct download links:</strong></p>
<ul>
<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/antibiotics.rds" class="external-link">R file</a> (32 kB)<br>
<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/antibiotics.rds" class="external-link">R file</a> (33 kB)<br>
</li>
<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/antibiotics.xlsx" class="external-link">Excel file</a> (65 kB)<br>
</li>
@ -1055,49 +1055,51 @@ If you are reading this page from within R, please <a href="https://msberends.gi
<div class="section level2">
<h2 id="interpretation-from-mic-values-disk-diameters-to-rsi">Interpretation from MIC values / disk diameters to R/SI<a class="anchor" aria-label="anchor" href="#interpretation-from-mic-values-disk-diameters-to-rsi"></a>
</h2>
<p>A data set with 22,000 rows and 10 columns, containing the following column names:<br><em>guideline</em>, <em>method</em>, <em>site</em>, <em>mo</em>, <em>ab</em>, <em>ref_tbl</em>, <em>disk_dose</em>, <em>breakpoint_S</em>, <em>breakpoint_R</em> and <em>uti</em>.</p>
<p>A data set with 20,318 rows and 11 columns, containing the following column names:<br><em>guideline</em>, <em>method</em>, <em>site</em>, <em>mo</em>, <em>rank_index</em>, <em>ab</em>, <em>ref_tbl</em>, <em>disk_dose</em>, <em>breakpoint_S</em>, <em>breakpoint_R</em> and <em>uti</em>.</p>
<p>This data set is in R available as <code>rsi_translation</code>, after you load the <code>AMR</code> package.</p>
<p>It was last updated on 12 December 2021 10:27:59 UTC. Find more info about the structure of this data set <a href="https://msberends.github.io/AMR/reference/rsi_translation.html">here</a>.</p>
<p>It was last updated on 13 December 2021 08:00:17 UTC. Find more info about the structure of this data set <a href="https://msberends.github.io/AMR/reference/rsi_translation.html">here</a>.</p>
<p><strong>Direct download links:</strong></p>
<ul>
<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.rds" class="external-link">R file</a> (39 kB)<br>
</li>
<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.xlsx" class="external-link">Excel file</a> (0.7 MB)<br>
</li>
<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.txt" class="external-link">plain text file</a> (1.9 MB)<br>
<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.txt" class="external-link">plain text file</a> (1.7 MB)<br>
</li>
<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.sas" class="external-link">SAS file</a> (4 MB)<br>
<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.sas" class="external-link">SAS file</a> (3.6 MB)<br>
</li>
<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.sav" class="external-link">SPSS file</a> (2.6 MB)<br>
<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.sav" class="external-link">SPSS file</a> (2.2 MB)<br>
</li>
<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.dta" class="external-link">Stata file</a> (3.8 MB)</li>
<li>Download as <a href="https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/rsi_translation.dta" class="external-link">Stata file</a> (3.5 MB)</li>
</ul>
<div class="section level3">
<h3 id="source-5">Source<a class="anchor" aria-label="anchor" href="#source-5"></a>
</h3>
<p>This data set contains interpretation rules for MIC values and disk diffusion diameters. Included guidelines are CLSI (2010-2020) and EUCAST (2011-2021).</p>
<p>This data set contains interpretation rules for MIC values and disk diffusion diameters. Included guidelines are CLSI (2010-2021) and EUCAST (2011-2021).</p>
</div>
<div class="section level3">
<h3 id="example-content-5">Example content<a class="anchor" aria-label="anchor" href="#example-content-5"></a>
</h3>
<table class="table">
<colgroup>
<col width="8%">
<col width="9%">
<col width="5%">
<col width="4%">
<col width="12%">
<col width="20%">
<col width="17%">
<col width="7%">
<col width="16%">
<col width="8%">
<col width="11%">
<col width="9%">
<col width="9%">
<col width="4%">
<col width="8%">
<col width="10%">
<col width="10%">
<col width="5%">
</colgroup>
<thead><tr class="header">
<th align="center">guideline</th>
<th align="center">method</th>
<th align="center">site</th>
<th align="center">mo</th>
<th align="center">rank_index</th>
<th align="center">ab</th>
<th align="center">ref_tbl</th>
<th align="center">disk_dose</th>
@ -1108,74 +1110,80 @@ If you are reading this page from within R, please <a href="https://msberends.gi
<tbody>
<tr class="odd">
<td align="center">EUCAST 2021</td>
<td align="center">DISK</td>
<td align="center">MIC</td>
<td align="center"></td>
<td align="center">Enterobacterales</td>
<td align="center">Amoxicillin/clavulanic acid</td>
<td align="center">Enterobacterales</td>
<td align="center">20-10ug</td>
<td align="center">19</td>
<td align="center">19</td>
<td align="center">Aspergillus fumigatus</td>
<td align="center">2</td>
<td align="center">Amphotericin B</td>
<td align="center">Aspergillus</td>
<td align="center"></td>
<td align="center">1</td>
<td align="center">4</td>
<td align="center">FALSE</td>
</tr>
<tr class="even">
<td align="center">EUCAST 2021</td>
<td align="center">DISK</td>
<td align="center">UTI</td>
<td align="center">Enterobacterales</td>
<td align="center">Amoxicillin/clavulanic acid</td>
<td align="center">Enterobacterales</td>
<td align="center">20-10ug</td>
<td align="center">16</td>
<td align="center">16</td>
<td align="center">TRUE</td>
<td align="center">MIC</td>
<td align="center"></td>
<td align="center">Aspergillus niger</td>
<td align="center">2</td>
<td align="center">Amphotericin B</td>
<td align="center">Aspergillus</td>
<td align="center"></td>
<td align="center">1</td>
<td align="center">4</td>
<td align="center">FALSE</td>
</tr>
<tr class="odd">
<td align="center">EUCAST 2021</td>
<td align="center">MIC</td>
<td align="center"></td>
<td align="center">Enterobacterales</td>
<td align="center">Amoxicillin/clavulanic acid</td>
<td align="center">Enterobacterales</td>
<td align="center">Candida</td>
<td align="center">3</td>
<td align="center">Amphotericin B</td>
<td align="center">Candida</td>
<td align="center"></td>
<td align="center">8</td>
<td align="center">8</td>
<td align="center">1</td>
<td align="center">2</td>
<td align="center">FALSE</td>
</tr>
<tr class="even">
<td align="center">EUCAST 2021</td>
<td align="center">MIC</td>
<td align="center">UTI</td>
<td align="center">Enterobacterales</td>
<td align="center">Amoxicillin/clavulanic acid</td>
<td align="center">Enterobacterales</td>
<td align="center"></td>
<td align="center">32</td>
<td align="center">32</td>
<td align="center">TRUE</td>
<td align="center">Candida albicans</td>
<td align="center">2</td>
<td align="center">Amphotericin B</td>
<td align="center">Candida</td>
<td align="center"></td>
<td align="center">1</td>
<td align="center">2</td>
<td align="center">FALSE</td>
</tr>
<tr class="odd">
<td align="center">EUCAST 2021</td>
<td align="center">MIC</td>
<td align="center"></td>
<td align="center">Actinomyces</td>
<td align="center">Amoxicillin/clavulanic acid</td>
<td align="center">Anaerobes, Grampositive</td>
<td align="center">Candida krusei</td>
<td align="center">2</td>
<td align="center">Amphotericin B</td>
<td align="center">Candida</td>
<td align="center"></td>
<td align="center">4</td>
<td align="center">8</td>
<td align="center">1</td>
<td align="center">2</td>
<td align="center">FALSE</td>
</tr>
<tr class="even">
<td align="center">EUCAST 2021</td>
<td align="center">MIC</td>
<td align="center"></td>
<td align="center">Bacteroides</td>
<td align="center">Amoxicillin/clavulanic acid</td>
<td align="center">Anaerobes, Gramnegative</td>
<td align="center">Candida parapsilosis</td>
<td align="center">2</td>
<td align="center">Amphotericin B</td>
<td align="center">Candida</td>
<td align="center"></td>
<td align="center">4</td>
<td align="center">8</td>
<td align="center">1</td>
<td align="center">2</td>
<td align="center">FALSE</td>
</tr>
</tbody>

2
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</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>

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@ -44,7 +44,7 @@
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>
@ -201,7 +201,7 @@
<p>Note: to keep the package size as small as possible, we only included this vignette on CRAN. You can read more vignettes on our website about how to conduct AMR data analysis, determine MDRO’s, find explanation of EUCAST rules, and much more: <a href="https://msberends.github.io/AMR/articles/" class="uri">https://msberends.github.io/AMR/articles/</a>.</p>
<hr>
<p><code>AMR</code> is a free, open-source and independent R package (see <a href="https://msberends.github.io/AMR/#copyright">Copyright</a>) to simplify the analysis and prediction of Antimicrobial Resistance (AMR) and to work with microbial and antimicrobial data and properties, by using evidence-based methods. <strong>Our aim is to provide a standard</strong> for clean and reproducible antimicrobial resistance data analysis, that can therefore empower epidemiological analyses to continuously enable surveillance and treatment evaluation in any setting.</p>
<p>After installing this package, R knows ~71,000 distinct microbial species and all ~560 antibiotic, antimycotic and antiviral drugs by name and code (including ATC, EARS-Net, PubChem, LOINC and SNOMED CT), and knows all about valid R/SI and MIC values. It supports any data format, including WHONET/EARS-Net data.</p>
<p>After installing this package, R knows ~71,000 distinct microbial species and all ~570 antibiotic, antimycotic and antiviral drugs by name and code (including ATC, EARS-Net, PubChem, LOINC and SNOMED CT), and knows all about valid R/SI and MIC values. It supports any data format, including WHONET/EARS-Net data.</p>
<p>The <code>AMR</code> package is available in Danish, Dutch, English, French, German, Italian, Portuguese, Russian, Spanish and Swedish. Antimicrobial drug (group) names and colloquial microorganism names are provided in these languages.</p>
<p>This package is fully independent of any other R package and works on Windows, macOS and Linux with all versions of R since R-3.0 (April 2013). <strong>It was designed to work in any setting, including those with very limited resources</strong>. Since its first public release in early 2018, this package has been downloaded from more than 175 countries.</p>
<p>This package can be used for:</p>

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</button>
<span class="navbar-brand">
<a class="navbar-link" href="index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>

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@ -47,7 +47,7 @@
</button>
<span class="navbar-brand">
<a class="navbar-link" href="index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>
@ -196,7 +196,6 @@
</h1></div>
<blockquote>
<p>Update: The latest <a href="https://www.eucast.org/expert_rules_and_intrinsic_resistance/" class="external-link">EUCAST guideline for intrinsic resistance</a> (v3.3, October 2021) is now supported, the CLSI 2021 interpretation guideline is now supported, and our taxonomy tables have been updated as well (LPSN, 5 October 2021).</p>
<p><strong>A new version will be released after the <a href="https://www.eucast.org/clinical_breakpoints/" class="external-link">EUCAST guideline for clinical breakpoints</a> (v12.0, likely January 2022) are implemented as well, to be expected shortly after the official guideline release.</strong></p>
</blockquote>
<div class="section level3">
<h3 id="what-is-amr-for-r">What is <code>AMR</code> (for R)?<a class="anchor" aria-label="anchor" href="#what-is-amr-for-r"></a>

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@ -17,7 +17,7 @@
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>
@ -157,13 +157,13 @@
</div>
<div class="section level2">
<h2 class="page-header" data-toc-text="1.7.1.9069" id="amr-1719069">
<code>AMR</code> 1.7.1.9069<a class="anchor" aria-label="anchor" href="#amr-1719069"></a></h2>
<h2 class="page-header" data-toc-text="1.7.1.9070" id="amr-1719070">
<code>AMR</code> 1.7.1.9070<a class="anchor" aria-label="anchor" href="#amr-1719070"></a></h2>
<div class="section level3">
<h3 id="last-updated-december-1-7-1-9069"><small>Last updated: 12 December 2021</small><a class="anchor" aria-label="anchor" href="#last-updated-december-1-7-1-9069"></a></h3>
<h3 id="last-updated-december-1-7-1-9070"><small>Last updated: 13 December 2021</small><a class="anchor" aria-label="anchor" href="#last-updated-december-1-7-1-9070"></a></h3>
<p>All functions in this package are now all considered to be stable. Updates to the AMR interpretation rules (such as by EUCAST and CLSI), the microbial taxonomy, and the antibiotic dosages will all be updated every 6 to 12 months from now on.</p>
<div class="section level4">
<h4 id="breaking-changes-1-7-1-9069">Breaking changes<a class="anchor" aria-label="anchor" href="#breaking-changes-1-7-1-9069"></a></h4>
<h4 id="breaking-changes-1-7-1-9070">Breaking changes<a class="anchor" aria-label="anchor" href="#breaking-changes-1-7-1-9070"></a></h4>
<ul><li>Removed <code>p_symbol()</code> and all <code>filter_*()</code> functions (except for <code><a href="../reference/first_isolate.html">filter_first_isolate()</a></code>), which were all deprecated in a previous package version</li>
<li>Removed the <code>key_antibiotics()</code> and <code>key_antibiotics_equal()</code> functions, which were deprecated and superseded by <code><a href="../reference/key_antimicrobials.html">key_antimicrobials()</a></code> and <code><a href="../reference/key_antimicrobials.html">antimicrobials_equal()</a></code>
</li>
@ -171,9 +171,9 @@
<li>Renamed function <code>get_locale()</code> to <code><a href="../reference/translate.html">get_AMR_locale()</a></code> to prevent conflicts with other packages</li>
</ul></div>
<div class="section level4">
<h4 id="new-1-7-1-9069">New<a class="anchor" aria-label="anchor" href="#new-1-7-1-9069"></a></h4>
<h4 id="new-1-7-1-9070">New<a class="anchor" aria-label="anchor" href="#new-1-7-1-9070"></a></h4>
<ul><li><p>Support for the CLSI 2021 guideline for interpreting MIC/disk diffusion values, which are incorporated in the <code>rsi_translation</code> data set</p></li>
<li><p>Support for EUCAST Intrinsic Resistance and Unusual Phenotypes v3.3 (October 2021). This is now the default EUCAST guideline in the package (all older guidelines are still available) for <code><a href="../reference/eucast_rules.html">eucast_rules()</a></code>, <code>mo_intrinsic_resistant()</code> and <code><a href="../reference/mdro.html">mdro()</a></code>. The <code>intrinsic_resistant</code> data set was also updated accordingly.</p></li>
<li><p>Support for EUCAST Intrinsic Resistance and Unusual Phenotypes v3.3 (October 2021). This is now the default EUCAST guideline in the package (all older guidelines are still available) for <code><a href="../reference/eucast_rules.html">eucast_rules()</a></code>, <code><a href="../reference/mo_property.html">mo_is_intrinsic_resistant()</a></code> and <code><a href="../reference/mdro.html">mdro()</a></code>. The <code>intrinsic_resistant</code> data set was also updated accordingly.</p></li>
<li><p>Support for all antimicrobial drug (group) names and colloquial microorganism names in Danish, Dutch, English, French, German, Italian, Portuguese, Russian, Spanish and Swedish</p></li>
<li>
<p>Function <code><a href="../reference/ab_property.html">set_ab_names()</a></code> to rename data set columns that resemble antimicrobial drugs. This allows for quickly renaming columns to official names, ATC codes, etc. Its second argument can be a tidyverse way of selecting:</p>
@ -186,7 +186,7 @@
<li><p>Function <code><a href="../reference/ab_property.html">ab_ddd_units()</a></code> to get units of DDDs (daily defined doses), deprecating the use of <code>ab_ddd(..., units = TRUE)</code> to be more consistent in data types of function output</p></li>
</ul></div>
<div class="section level4">
<h4 id="changed-1-7-1-9069">Changed<a class="anchor" aria-label="anchor" href="#changed-1-7-1-9069"></a></h4>
<h4 id="changed-1-7-1-9070">Changed<a class="anchor" aria-label="anchor" href="#changed-1-7-1-9070"></a></h4>
<ul><li>Updated the bacterial taxonomy to 5 October 2021 (according to <a href="https://lpsn.dsmz.de" class="external-link">LPSN</a>), including all 11 new staphylococcal species named since 1 January last year</li>
<li>The <code>antibiotics</code> data set now contains <strong>all ATC codes</strong> that are available through the <a href="https://www.whocc.no" class="external-link">WHOCC website</a>, regardless of drugs being present in more than one ATC group. This means that:
<ul><li>Some drugs now contain multiple ATC codes (e.g., metronidazole contains 5)</li>
@ -221,6 +221,7 @@
<li><p>Fix for using having multiple columns that are coerced to the same antibiotic agent</p></li>
<li><p>Fixed for using <code><a href="https://rdrr.io/r/base/all.html" class="external-link">all()</a></code> or <code><a href="https://rdrr.io/r/base/any.html" class="external-link">any()</a></code> on antibiotic selectors in an R Markdown file</p></li>
</ul></li>
<li>Added the following antimicrobial agents that are now covered by the WHO: aztreonam/nacubactam (ANC), cefepime/nacubactam (FNC), exebacase (EXE), ozenoxacin (OZN), zoliflodacin (ZFD), manogepix (MGX), ibrexafungerp (IBX), and rezafungin (RZF). None of these agents have an ATC code yet.</li>
<li>Fixed the Gram stain (<code><a href="../reference/mo_property.html">mo_gramstain()</a></code>) determination of the taxonomic class Negativicutes within the phylum of Firmicutes - they were considered Gram-positives because of their phylum but are actually Gram-negative. This impacts 137 taxonomic species, genera and families, such as <em>Negativicoccus</em> and <em>Veillonella</em>.</li>
<li>Dramatic speed improvement for <code><a href="../reference/first_isolate.html">first_isolate()</a></code>
</li>
@ -255,7 +256,7 @@
<code><a href="../reference/get_episode.html">get_episode()</a></code> and <code><a href="../reference/get_episode.html">is_new_episode()</a></code> can now cope with <code>NA</code>s</li>
</ul></div>
<div class="section level4">
<h4 id="other-1-7-1-9069">Other<a class="anchor" aria-label="anchor" href="#other-1-7-1-9069"></a></h4>
<h4 id="other-1-7-1-9070">Other<a class="anchor" aria-label="anchor" href="#other-1-7-1-9070"></a></h4>
<ul><li>This package is now being maintained by two epidemiologists and a data scientist from two different non-profit healthcare organisations.</li>
</ul></div>
</div>

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</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>
@ -166,7 +166,7 @@
<div id="details">
<h2>Details</h2>
<p><code>AMR</code> is a free, open-source and independent <span style="R">R</span> package 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 antimicrobial resistance data analysis, that can therefore empower epidemiological analyses to continuously enable surveillance and treatment evaluation in any setting.</p>
<p>After installing this package, <span style="R">R</span> knows ~71,000 distinct microbial species and all ~560 antibiotic, antimycotic and antiviral drugs by name and code (including ATC, EARS-NET, 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, <span style="R">R</span> knows ~71,000 distinct microbial species and all ~570 antibiotic, antimycotic and antiviral drugs by name and code (including ATC, EARS-NET, 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>This package is fully independent of any other <span style="R">R</span> package and works on Windows, macOS and Linux with all versions of <span style="R">R</span> 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, in collaboration with non-profit organisations Certe Medical Diagnostics and Advice and University Medical Center Groningen. This <span style="R">R</span> package is actively maintained and free software; you can freely use and distribute it for both personal and commercial (but not patent) purposes under the terms of the GNU General Public License version 2.0 (GPL-2), as published by the Free Software Foundation.</p>
<p>This package can be used for:</p><ul><li><p>Reference for the taxonomy of microorganisms, since the package contains all microbial (sub)species from the Catalogue of Life and List of Prokaryotic names with Standing in Nomenclature</p></li>
<li><p>Interpreting raw MIC and disk diffusion values, based on the latest CLSI or EUCAST guidelines</p></li>

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</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>

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</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>
@ -262,23 +262,23 @@
<ul><li><p><code>aminoglycosides()</code> can select: <br> amikacin (AMK), amikacin/fosfomycin (AKF), amphotericin B-high (AMH), apramycin (APR), arbekacin (ARB), astromicin (AST), bekanamycin (BEK), dibekacin (DKB), framycetin (FRM), gentamicin (GEN), gentamicin-high (GEH), habekacin (HAB), hygromycin (HYG), isepamicin (ISE), kanamycin (KAN), kanamycin-high (KAH), kanamycin/cephalexin (KAC), micronomicin (MCR), neomycin (NEO), netilmicin (NET), pentisomicin (PIM), plazomicin (PLZ), propikacin (PKA), ribostamycin (RST), sisomicin (SIS), streptoduocin (STR), streptomycin (STR1), streptomycin-high (STH), tobramycin (TOB) and tobramycin-high (TOH)</p></li>
<li><p><code>aminopenicillins()</code> can select: <br> amoxicillin (AMX) and ampicillin (AMP)</p></li>
<li><p><code>antifungals()</code> can select: <br> 5-fluorocytosine (FCT), amphotericin B (AMB), anidulafungin (ANI), butoconazole (BUT), caspofungin (CAS), ciclopirox (CIX), clotrimazole (CTR), econazole (ECO), fluconazole (FLU), fosfluconazole (FFL), griseofulvin (GRI), hachimycin (HCH), isavuconazole (ISV), isoconazole (ISO), itraconazole (ITR), ketoconazole (KET), micafungin (MIF), miconazole (MCZ), nystatin (NYS), pimaricin (Natamycin) (PMR), posaconazole (POS), ribociclib (RBC), sulconazole (SUC), terbinafine (TRB), terconazole (TRC) and voriconazole (VOR)</p></li>
<li><p><code>antimycobacterials()</code> can select: <br> 4-aminosalicylic acid (AMA), calcium aminosalicylate (CLA), capreomycin (CAP), clofazimine (CLF), delamanid (DLM), enviomycin (Tuberactinomycin) (ENV), ethambutol (ETH), ethambutol/isoniazid (ETI), ethionamide (ETI1), isoniazid (INH), morinamide (MRN), p-aminosalicylic acid (PAS), pretomanid (PMD), prothionamide (PTH), pyrazinamide (PZA), rifabutin (RIB), rifampicin (RIF), rifampicin/isoniazid (RFI), rifampicin/pyrazinamide/ethambutol/isoniazid (RPEI), rifampicin/pyrazinamide/isoniazid (RPI), rifamycin (RFM), rifapentine (RFP), simvastatin/fenofibrate (SMF), sodium aminosalicylate (SDA), streptomycin/isoniazid (STI), terizidone (TRZ), thioacetazone/isoniazid (THI1), tiocarlide (TCR) and viomycin (VIO)</p></li>
<li><p><code>betalactams()</code> can select: <br> amoxicillin (AMX), amoxicillin/clavulanic acid (AMC), amoxicillin/sulbactam (AXS), ampicillin (AMP), ampicillin/sulbactam (SAM), apalcillin (APL), aspoxicillin (APX), avibactam (AVB), azidocillin (AZD), azlocillin (AZL), aztreonam (ATM), aztreonam/avibactam (AZA), bacampicillin (BAM), benzathine benzylpenicillin (BNB), benzathine phenoxymethylpenicillin (BNP), benzylpenicillin (PEN), biapenem (BIA), carbenicillin (CRB), carindacillin (CRN), cefacetrile (CAC), cefaclor (CEC), cefadroxil (CFR), cefaloridine (RID), cefamandole (MAN), cefatrizine (CTZ), cefazedone (CZD), cefazolin (CZO), cefcapene (CCP), cefcapene pivoxil (CCX), cefdinir (CDR), cefditoren (DIT), cefditoren pivoxil (DIX), cefepime (FEP), cefepime/clavulanic acid (CPC), cefepime/tazobactam (FPT), cefetamet (CAT), cefetamet pivoxil (CPI), cefetecol (Cefcatacol) (CCL), cefetrizole (CZL), cefixime (CFM), cefmenoxime (CMX), cefmetazole (CMZ), cefodizime (DIZ), cefonicid (CID), cefoperazone (CFP), cefoperazone/sulbactam (CSL), ceforanide (CND), cefoselis (CSE), cefotaxime (CTX), cefotaxime/clavulanic acid (CTC), cefotaxime/sulbactam (CTS), cefotetan (CTT), cefotiam (CTF), cefotiam hexetil (CHE), cefovecin (FOV), cefoxitin (FOX), cefoxitin screening (FOX1), cefozopran (ZOP), cefpimizole (CFZ), cefpiramide (CPM), cefpirome (CPO), cefpodoxime (CPD), cefpodoxime proxetil (CPX), cefpodoxime/clavulanic acid (CDC), cefprozil (CPR), cefquinome (CEQ), cefroxadine (CRD), cefsulodin (CFS), cefsumide (CSU), ceftaroline (CPT), ceftaroline/avibactam (CPA), ceftazidime (CAZ), ceftazidime/avibactam (CZA), ceftazidime/clavulanic acid (CCV), cefteram (CEM), cefteram pivoxil (CPL), ceftezole (CTL), ceftibuten (CTB), ceftiofur (TIO), ceftizoxime (CZX), ceftizoxime alapivoxil (CZP), ceftobiprole (BPR), ceftobiprole medocaril (CFM1), ceftolozane/enzyme inhibitor (CEI), ceftolozane/tazobactam (CZT), ceftriaxone (CRO), cefuroxime (CXM), cefuroxime axetil (CXA), cephalexin (LEX), cephalothin (CEP), cephapirin (HAP), cephradine (CED), ciclacillin (CIC), clometocillin (CLM), cloxacillin (CLO), dicloxacillin (DIC), doripenem (DOR), epicillin (EPC), ertapenem (ETP), flucloxacillin (FLC), hetacillin (HET), imipenem (IPM), imipenem/EDTA (IPE), imipenem/relebactam (IMR), latamoxef (LTM), lenampicillin (LEN), loracarbef (LOR), mecillinam (Amdinocillin) (MEC), meropenem (MEM), meropenem/nacubactam (MNC), meropenem/vaborbactam (MEV), metampicillin (MTM), methicillin (MET), mezlocillin (MEZ), mezlocillin/sulbactam (MSU), nacubactam (NAC), nafcillin (NAF), oxacillin (OXA), panipenem (PAN), penamecillin (PNM), penicillin/novobiocin (PNO), penicillin/sulbactam (PSU), phenethicillin (PHE), phenoxymethylpenicillin (PHN), piperacillin (PIP), piperacillin/sulbactam (PIS), piperacillin/tazobactam (TZP), piridicillin (PRC), pivampicillin (PVM), pivmecillinam (PME), procaine benzylpenicillin (PRB), propicillin (PRP), razupenem (RZM), ritipenem (RIT), ritipenem acoxil (RIA), sarmoxicillin (SRX), sulbactam (SUL), sulbenicillin (SBC), sultamicillin (SLT6), talampicillin (TAL), tazobactam (TAZ), tebipenem (TBP), temocillin (TEM), ticarcillin (TIC) and ticarcillin/clavulanic acid (TCC)</p></li>
<li><p><code>antifungals()</code> can select: <br> 5-fluorocytosine (FCT), amphotericin B (AMB), anidulafungin (ANI), butoconazole (BUT), caspofungin (CAS), ciclopirox (CIX), clotrimazole (CTR), econazole (ECO), fluconazole (FLU), fosfluconazole (FFL), griseofulvin (GRI), hachimycin (HCH), ibrexafungerp (IBX), isavuconazole (ISV), isoconazole (ISO), itraconazole (ITR), ketoconazole (KET), manogepix (MGX), micafungin (MIF), miconazole (MCZ), nystatin (NYS), pimaricin (PMR), posaconazole (POS), rezafungin (RZF), ribociclib (RBC), sulconazole (SUC), terbinafine (TRB), terconazole (TRC) and voriconazole (VOR)</p></li>
<li><p><code>antimycobacterials()</code> can select: <br> 4-aminosalicylic acid (AMA), calcium aminosalicylate (CLA), capreomycin (CAP), clofazimine (CLF), delamanid (DLM), enviomycin (ENV), ethambutol (ETH), ethambutol/isoniazid (ETI), ethionamide (ETI1), isoniazid (INH), morinamide (MRN), p-aminosalicylic acid (PAS), pretomanid (PMD), prothionamide (PTH), pyrazinamide (PZA), rifabutin (RIB), rifampicin (RIF), rifampicin/isoniazid (RFI), rifampicin/pyrazinamide/ethambutol/isoniazid (RPEI), rifampicin/pyrazinamide/isoniazid (RPI), rifamycin (RFM), rifapentine (RFP), simvastatin/fenofibrate (SMF), sodium aminosalicylate (SDA), streptomycin/isoniazid (STI), terizidone (TRZ), thioacetazone/isoniazid (THI1), tiocarlide (TCR) and viomycin (VIO)</p></li>
<li><p><code>betalactams()</code> can select: <br> amoxicillin (AMX), amoxicillin/clavulanic acid (AMC), amoxicillin/sulbactam (AXS), ampicillin (AMP), ampicillin/sulbactam (SAM), apalcillin (APL), aspoxicillin (APX), avibactam (AVB), azidocillin (AZD), azlocillin (AZL), aztreonam (ATM), aztreonam/avibactam (AZA), aztreonam/nacubactam (ANC), bacampicillin (BAM), benzathine benzylpenicillin (BNB), benzathine phenoxymethylpenicillin (BNP), benzylpenicillin (PEN), biapenem (BIA), carbenicillin (CRB), carindacillin (CRN), cefacetrile (CAC), cefaclor (CEC), cefadroxil (CFR), cefaloridine (RID), cefamandole (MAN), cefatrizine (CTZ), cefazedone (CZD), cefazolin (CZO), cefcapene (CCP), cefcapene pivoxil (CCX), cefdinir (CDR), cefditoren (DIT), cefditoren pivoxil (DIX), cefepime (FEP), cefepime/clavulanic acid (CPC), cefepime/nacubactam (FNC), cefepime/tazobactam (FPT), cefetamet (CAT), cefetamet pivoxil (CPI), cefetecol (CCL), cefetrizole (CZL), cefixime (CFM), cefmenoxime (CMX), cefmetazole (CMZ), cefodizime (DIZ), cefonicid (CID), cefoperazone (CFP), cefoperazone/sulbactam (CSL), ceforanide (CND), cefoselis (CSE), cefotaxime (CTX), cefotaxime/clavulanic acid (CTC), cefotaxime/sulbactam (CTS), cefotetan (CTT), cefotiam (CTF), cefotiam hexetil (CHE), cefovecin (FOV), cefoxitin (FOX), cefoxitin screening (FOX1), cefozopran (ZOP), cefpimizole (CFZ), cefpiramide (CPM), cefpirome (CPO), cefpodoxime (CPD), cefpodoxime proxetil (CPX), cefpodoxime/clavulanic acid (CDC), cefprozil (CPR), cefquinome (CEQ), cefroxadine (CRD), cefsulodin (CFS), cefsumide (CSU), ceftaroline (CPT), ceftaroline/avibactam (CPA), ceftazidime (CAZ), ceftazidime/avibactam (CZA), ceftazidime/clavulanic acid (CCV), cefteram (CEM), cefteram pivoxil (CPL), ceftezole (CTL), ceftibuten (CTB), ceftiofur (TIO), ceftizoxime (CZX), ceftizoxime alapivoxil (CZP), ceftobiprole (BPR), ceftobiprole medocaril (CFM1), ceftolozane/enzyme inhibitor (CEI), ceftolozane/tazobactam (CZT), ceftriaxone (CRO), cefuroxime (CXM), cefuroxime axetil (CXA), cephalexin (LEX), cephalothin (CEP), cephapirin (HAP), cephradine (CED), ciclacillin (CIC), clometocillin (CLM), cloxacillin (CLO), dicloxacillin (DIC), doripenem (DOR), epicillin (EPC), ertapenem (ETP), flucloxacillin (FLC), hetacillin (HET), imipenem (IPM), imipenem/EDTA (IPE), imipenem/relebactam (IMR), latamoxef (LTM), lenampicillin (LEN), loracarbef (LOR), mecillinam (MEC), meropenem (MEM), meropenem/nacubactam (MNC), meropenem/vaborbactam (MEV), metampicillin (MTM), methicillin (MET), mezlocillin (MEZ), mezlocillin/sulbactam (MSU), nacubactam (NAC), nafcillin (NAF), oxacillin (OXA), panipenem (PAN), penamecillin (PNM), penicillin/novobiocin (PNO), penicillin/sulbactam (PSU), phenethicillin (PHE), phenoxymethylpenicillin (PHN), piperacillin (PIP), piperacillin/sulbactam (PIS), piperacillin/tazobactam (TZP), piridicillin (PRC), pivampicillin (PVM), pivmecillinam (PME), procaine benzylpenicillin (PRB), propicillin (PRP), razupenem (RZM), ritipenem (RIT), ritipenem acoxil (RIA), sarmoxicillin (SRX), sulbactam (SUL), sulbenicillin (SBC), sultamicillin (SLT6), talampicillin (TAL), tazobactam (TAZ), tebipenem (TBP), temocillin (TEM), ticarcillin (TIC) and ticarcillin/clavulanic acid (TCC)</p></li>
<li><p><code>carbapenems()</code> can select: <br> biapenem (BIA), doripenem (DOR), ertapenem (ETP), imipenem (IPM), imipenem/EDTA (IPE), imipenem/relebactam (IMR), meropenem (MEM), meropenem/nacubactam (MNC), meropenem/vaborbactam (MEV), panipenem (PAN), razupenem (RZM), ritipenem (RIT), ritipenem acoxil (RIA) and tebipenem (TBP)</p></li>
<li><p><code>cephalosporins()</code> can select: <br> cefacetrile (CAC), cefaclor (CEC), cefadroxil (CFR), cefaloridine (RID), cefamandole (MAN), cefatrizine (CTZ), cefazedone (CZD), cefazolin (CZO), cefcapene (CCP), cefcapene pivoxil (CCX), cefdinir (CDR), cefditoren (DIT), cefditoren pivoxil (DIX), cefepime (FEP), cefepime/clavulanic acid (CPC), cefepime/tazobactam (FPT), cefetamet (CAT), cefetamet pivoxil (CPI), cefetecol (Cefcatacol) (CCL), cefetrizole (CZL), cefixime (CFM), cefmenoxime (CMX), cefmetazole (CMZ), cefodizime (DIZ), cefonicid (CID), cefoperazone (CFP), cefoperazone/sulbactam (CSL), ceforanide (CND), cefoselis (CSE), cefotaxime (CTX), cefotaxime/clavulanic acid (CTC), cefotaxime/sulbactam (CTS), cefotetan (CTT), cefotiam (CTF), cefotiam hexetil (CHE), cefovecin (FOV), cefoxitin (FOX), cefoxitin screening (FOX1), cefozopran (ZOP), cefpimizole (CFZ), cefpiramide (CPM), cefpirome (CPO), cefpodoxime (CPD), cefpodoxime proxetil (CPX), cefpodoxime/clavulanic acid (CDC), cefprozil (CPR), cefquinome (CEQ), cefroxadine (CRD), cefsulodin (CFS), cefsumide (CSU), ceftaroline (CPT), ceftaroline/avibactam (CPA), ceftazidime (CAZ), ceftazidime/avibactam (CZA), ceftazidime/clavulanic acid (CCV), cefteram (CEM), cefteram pivoxil (CPL), ceftezole (CTL), ceftibuten (CTB), ceftiofur (TIO), ceftizoxime (CZX), ceftizoxime alapivoxil (CZP), ceftobiprole (BPR), ceftobiprole medocaril (CFM1), ceftolozane/enzyme inhibitor (CEI), ceftolozane/tazobactam (CZT), ceftriaxone (CRO), cefuroxime (CXM), cefuroxime axetil (CXA), cephalexin (LEX), cephalothin (CEP), cephapirin (HAP), cephradine (CED), latamoxef (LTM) and loracarbef (LOR)</p></li>
<li><p><code>cephalosporins()</code> can select: <br> cefacetrile (CAC), cefaclor (CEC), cefadroxil (CFR), cefaloridine (RID), cefamandole (MAN), cefatrizine (CTZ), cefazedone (CZD), cefazolin (CZO), cefcapene (CCP), cefcapene pivoxil (CCX), cefdinir (CDR), cefditoren (DIT), cefditoren pivoxil (DIX), cefepime (FEP), cefepime/clavulanic acid (CPC), cefepime/tazobactam (FPT), cefetamet (CAT), cefetamet pivoxil (CPI), cefetecol (CCL), cefetrizole (CZL), cefixime (CFM), cefmenoxime (CMX), cefmetazole (CMZ), cefodizime (DIZ), cefonicid (CID), cefoperazone (CFP), cefoperazone/sulbactam (CSL), ceforanide (CND), cefoselis (CSE), cefotaxime (CTX), cefotaxime/clavulanic acid (CTC), cefotaxime/sulbactam (CTS), cefotetan (CTT), cefotiam (CTF), cefotiam hexetil (CHE), cefovecin (FOV), cefoxitin (FOX), cefoxitin screening (FOX1), cefozopran (ZOP), cefpimizole (CFZ), cefpiramide (CPM), cefpirome (CPO), cefpodoxime (CPD), cefpodoxime proxetil (CPX), cefpodoxime/clavulanic acid (CDC), cefprozil (CPR), cefquinome (CEQ), cefroxadine (CRD), cefsulodin (CFS), cefsumide (CSU), ceftaroline (CPT), ceftaroline/avibactam (CPA), ceftazidime (CAZ), ceftazidime/avibactam (CZA), ceftazidime/clavulanic acid (CCV), cefteram (CEM), cefteram pivoxil (CPL), ceftezole (CTL), ceftibuten (CTB), ceftiofur (TIO), ceftizoxime (CZX), ceftizoxime alapivoxil (CZP), ceftobiprole (BPR), ceftobiprole medocaril (CFM1), ceftolozane/enzyme inhibitor (CEI), ceftolozane/tazobactam (CZT), ceftriaxone (CRO), cefuroxime (CXM), cefuroxime axetil (CXA), cephalexin (LEX), cephalothin (CEP), cephapirin (HAP), cephradine (CED), latamoxef (LTM) and loracarbef (LOR)</p></li>
<li><p><code>cephalosporins_1st()</code> can select: <br> cefacetrile (CAC), cefadroxil (CFR), cefaloridine (RID), cefatrizine (CTZ), cefazedone (CZD), cefazolin (CZO), cefroxadine (CRD), ceftezole (CTL), cephalexin (LEX), cephalothin (CEP), cephapirin (HAP) and cephradine (CED)</p></li>
<li><p><code>cephalosporins_2nd()</code> can select: <br> cefaclor (CEC), cefamandole (MAN), cefmetazole (CMZ), cefonicid (CID), ceforanide (CND), cefotetan (CTT), cefotiam (CTF), cefoxitin (FOX), cefoxitin screening (FOX1), cefprozil (CPR), cefuroxime (CXM), cefuroxime axetil (CXA) and loracarbef (LOR)</p></li>
<li><p><code>cephalosporins_3rd()</code> can select: <br> cefcapene (CCP), cefcapene pivoxil (CCX), cefdinir (CDR), cefditoren (DIT), cefditoren pivoxil (DIX), cefetamet (CAT), cefetamet pivoxil (CPI), cefixime (CFM), cefmenoxime (CMX), cefodizime (DIZ), cefoperazone (CFP), cefoperazone/sulbactam (CSL), cefotaxime (CTX), cefotaxime/clavulanic acid (CTC), cefotaxime/sulbactam (CTS), cefotiam hexetil (CHE), cefovecin (FOV), cefpimizole (CFZ), cefpiramide (CPM), cefpodoxime (CPD), cefpodoxime proxetil (CPX), cefpodoxime/clavulanic acid (CDC), cefsulodin (CFS), ceftazidime (CAZ), ceftazidime/avibactam (CZA), ceftazidime/clavulanic acid (CCV), cefteram (CEM), cefteram pivoxil (CPL), ceftibuten (CTB), ceftiofur (TIO), ceftizoxime (CZX), ceftizoxime alapivoxil (CZP), ceftriaxone (CRO) and latamoxef (LTM)</p></li>
<li><p><code>cephalosporins_4th()</code> can select: <br> cefepime (FEP), cefepime/clavulanic acid (CPC), cefepime/tazobactam (FPT), cefetecol (Cefcatacol) (CCL), cefoselis (CSE), cefozopran (ZOP), cefpirome (CPO) and cefquinome (CEQ)</p></li>
<li><p><code>cephalosporins_4th()</code> can select: <br> cefepime (FEP), cefepime/clavulanic acid (CPC), cefepime/tazobactam (FPT), cefetecol (CCL), cefoselis (CSE), cefozopran (ZOP), cefpirome (CPO) and cefquinome (CEQ)</p></li>
<li><p><code>cephalosporins_5th()</code> can select: <br> ceftaroline (CPT), ceftaroline/avibactam (CPA), ceftobiprole (BPR), ceftobiprole medocaril (CFM1), ceftolozane/enzyme inhibitor (CEI) and ceftolozane/tazobactam (CZT)</p></li>
<li><p><code>fluoroquinolones()</code> can select: <br> besifloxacin (BES), ciprofloxacin (CIP), clinafloxacin (CLX), danofloxacin (DAN), delafloxacin (DFX), difloxacin (DIF), enoxacin (ENX), enrofloxacin (ENR), finafloxacin (FIN), fleroxacin (FLE), garenoxacin (GRN), gatifloxacin (GAT), gemifloxacin (GEM), grepafloxacin (GRX), levofloxacin (LVX), levonadifloxacin (LND), lomefloxacin (LOM), marbofloxacin (MAR), metioxate (MXT), miloxacin (MIL), moxifloxacin (MFX), nadifloxacin (NAD), nifuroquine (NIF), norfloxacin (NOR), ofloxacin (OFX), orbifloxacin (ORB), pazufloxacin (PAZ), pefloxacin (PEF), pradofloxacin (PRA), premafloxacin (PRX), prulifloxacin (PRU), rufloxacin (RFL), sarafloxacin (SAR), sitafloxacin (SIT), sparfloxacin (SPX), temafloxacin (TMX), tilbroquinol (TBQ), tioxacin (TXC), tosufloxacin (TFX) and trovafloxacin (TVA)</p></li>
<li><p><code>glycopeptides()</code> can select: <br> avoparcin (AVO), dalbavancin (DAL), norvancomycin (NVA), oritavancin (ORI), ramoplanin (RAM), teicoplanin (TEC), teicoplanin-macromethod (TCM), telavancin (TLV), vancomycin (VAN) and vancomycin-macromethod (VAM)</p></li>
<li><p><code>lincosamides()</code> can select: <br> acetylmidecamycin (ACM), acetylspiramycin (ASP), clindamycin (CLI), gamithromycin (GAM), kitasamycin (Leucomycin) (KIT), lincomycin (LIN), meleumycin (MEL), nafithromycin (ZWK), pirlimycin (PRL), primycin (PRM), solithromycin (SOL), tildipirosin (TIP), tilmicosin (TIL), tulathromycin (TUL), tylosin (TYL) and tylvalosin (TYL1)</p></li>
<li><p><code>lincosamides()</code> can select: <br> acetylmidecamycin (ACM), acetylspiramycin (ASP), clindamycin (CLI), gamithromycin (GAM), kitasamycin (KIT), lincomycin (LIN), meleumycin (MEL), nafithromycin (ZWK), pirlimycin (PRL), primycin (PRM), solithromycin (SOL), tildipirosin (TIP), tilmicosin (TIL), tulathromycin (TUL), tylosin (TYL) and tylvalosin (TYL1)</p></li>
<li><p><code>lipoglycopeptides()</code> can select: <br> dalbavancin (DAL), oritavancin (ORI) and telavancin (TLV)</p></li>
<li><p><code>macrolides()</code> can select: <br> acetylmidecamycin (ACM), acetylspiramycin (ASP), azithromycin (AZM), clarithromycin (CLR), dirithromycin (DIR), erythromycin (ERY), flurithromycin (FLR1), gamithromycin (GAM), josamycin (JOS), kitasamycin (Leucomycin) (KIT), meleumycin (MEL), midecamycin (MID), miocamycin (MCM), nafithromycin (ZWK), oleandomycin (OLE), pirlimycin (PRL), primycin (PRM), rokitamycin (ROK), roxithromycin (RXT), solithromycin (SOL), spiramycin (SPI), telithromycin (TLT), tildipirosin (TIP), tilmicosin (TIL), troleandomycin (TRL), tulathromycin (TUL), tylosin (TYL) and tylvalosin (TYL1)</p></li>
<li><p><code>macrolides()</code> can select: <br> acetylmidecamycin (ACM), acetylspiramycin (ASP), azithromycin (AZM), clarithromycin (CLR), dirithromycin (DIR), erythromycin (ERY), flurithromycin (FLR1), gamithromycin (GAM), josamycin (JOS), kitasamycin (KIT), meleumycin (MEL), midecamycin (MID), miocamycin (MCM), nafithromycin (ZWK), oleandomycin (OLE), pirlimycin (PRL), primycin (PRM), rokitamycin (ROK), roxithromycin (RXT), solithromycin (SOL), spiramycin (SPI), telithromycin (TLT), tildipirosin (TIP), tilmicosin (TIL), troleandomycin (TRL), tulathromycin (TUL), tylosin (TYL) and tylvalosin (TYL1)</p></li>
<li><p><code>oxazolidinones()</code> can select: <br> cadazolid (CDZ), cycloserine (CYC), linezolid (LNZ), tedizolid (TZD) and thiacetazone (THA)</p></li>
<li><p><code>penicillins()</code> can select: <br> amoxicillin (AMX), amoxicillin/clavulanic acid (AMC), amoxicillin/sulbactam (AXS), ampicillin (AMP), ampicillin/sulbactam (SAM), apalcillin (APL), aspoxicillin (APX), avibactam (AVB), azidocillin (AZD), azlocillin (AZL), aztreonam (ATM), aztreonam/avibactam (AZA), bacampicillin (BAM), benzathine benzylpenicillin (BNB), benzathine phenoxymethylpenicillin (BNP), benzylpenicillin (PEN), carbenicillin (CRB), carindacillin (CRN), ciclacillin (CIC), clometocillin (CLM), cloxacillin (CLO), dicloxacillin (DIC), epicillin (EPC), flucloxacillin (FLC), hetacillin (HET), lenampicillin (LEN), mecillinam (Amdinocillin) (MEC), metampicillin (MTM), methicillin (MET), mezlocillin (MEZ), mezlocillin/sulbactam (MSU), nacubactam (NAC), nafcillin (NAF), oxacillin (OXA), penamecillin (PNM), penicillin/novobiocin (PNO), penicillin/sulbactam (PSU), phenethicillin (PHE), phenoxymethylpenicillin (PHN), piperacillin (PIP), piperacillin/sulbactam (PIS), piperacillin/tazobactam (TZP), piridicillin (PRC), pivampicillin (PVM), pivmecillinam (PME), procaine benzylpenicillin (PRB), propicillin (PRP), sarmoxicillin (SRX), sulbactam (SUL), sulbenicillin (SBC), sultamicillin (SLT6), talampicillin (TAL), tazobactam (TAZ), temocillin (TEM), ticarcillin (TIC) and ticarcillin/clavulanic acid (TCC)</p></li>
<li><p><code>penicillins()</code> can select: <br> amoxicillin (AMX), amoxicillin/clavulanic acid (AMC), amoxicillin/sulbactam (AXS), ampicillin (AMP), ampicillin/sulbactam (SAM), apalcillin (APL), aspoxicillin (APX), avibactam (AVB), azidocillin (AZD), azlocillin (AZL), aztreonam (ATM), aztreonam/avibactam (AZA), aztreonam/nacubactam (ANC), bacampicillin (BAM), benzathine benzylpenicillin (BNB), benzathine phenoxymethylpenicillin (BNP), benzylpenicillin (PEN), carbenicillin (CRB), carindacillin (CRN), cefepime/nacubactam (FNC), ciclacillin (CIC), clometocillin (CLM), cloxacillin (CLO), dicloxacillin (DIC), epicillin (EPC), flucloxacillin (FLC), hetacillin (HET), lenampicillin (LEN), mecillinam (MEC), metampicillin (MTM), methicillin (MET), mezlocillin (MEZ), mezlocillin/sulbactam (MSU), nacubactam (NAC), nafcillin (NAF), oxacillin (OXA), penamecillin (PNM), penicillin/novobiocin (PNO), penicillin/sulbactam (PSU), phenethicillin (PHE), phenoxymethylpenicillin (PHN), piperacillin (PIP), piperacillin/sulbactam (PIS), piperacillin/tazobactam (TZP), piridicillin (PRC), pivampicillin (PVM), pivmecillinam (PME), procaine benzylpenicillin (PRB), propicillin (PRP), sarmoxicillin (SRX), sulbactam (SUL), sulbenicillin (SBC), sultamicillin (SLT6), talampicillin (TAL), tazobactam (TAZ), temocillin (TEM), ticarcillin (TIC) and ticarcillin/clavulanic acid (TCC)</p></li>
<li><p><code>polymyxins()</code> can select: <br> colistin (COL), polymyxin B (PLB) and polymyxin B/polysorbate 80 (POP)</p></li>
<li><p><code>quinolones()</code> can select: <br> besifloxacin (BES), cinoxacin (CIN), ciprofloxacin (CIP), clinafloxacin (CLX), danofloxacin (DAN), delafloxacin (DFX), difloxacin (DIF), enoxacin (ENX), enrofloxacin (ENR), finafloxacin (FIN), fleroxacin (FLE), flumequine (FLM), garenoxacin (GRN), gatifloxacin (GAT), gemifloxacin (GEM), grepafloxacin (GRX), levofloxacin (LVX), levonadifloxacin (LND), lomefloxacin (LOM), marbofloxacin (MAR), metioxate (MXT), miloxacin (MIL), moxifloxacin (MFX), nadifloxacin (NAD), nalidixic acid (NAL), nifuroquine (NIF), nitroxoline (NTR), norfloxacin (NOR), ofloxacin (OFX), orbifloxacin (ORB), oxolinic acid (OXO), pazufloxacin (PAZ), pefloxacin (PEF), pipemidic acid (PPA), piromidic acid (PIR), pradofloxacin (PRA), premafloxacin (PRX), prulifloxacin (PRU), rosoxacin (ROS), rufloxacin (RFL), sarafloxacin (SAR), sitafloxacin (SIT), sparfloxacin (SPX), temafloxacin (TMX), tilbroquinol (TBQ), tioxacin (TXC), tosufloxacin (TFX) and trovafloxacin (TVA)</p></li>
<li><p><code>streptogramins()</code> can select: <br> pristinamycin (PRI) and quinupristin/dalfopristin (QDA)</p></li>

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<h1>Data Sets with 558 Antimicrobial Drugs</h1>
<h1>Data Sets with 566 Antimicrobial Drugs</h1>
<small class="dont-index">Source: <a href="https://github.com/msberends/AMR/blob/HEAD/R/data.R" class="external-link"><code>R/data.R</code></a></small>
<div class="hidden name"><code>antibiotics.Rd</code></div>
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<h2>Format</h2>
<div class="section">
<h3 id="for-the-antibiotics-data-set-a-data-frame-with-observations-and-variables-">For the antibiotics data set: a <a href="https://rdrr.io/r/base/data.frame.html" class="external-link">data.frame</a> with 456 observations and 14 variables:<a class="anchor" aria-label="anchor" href="#for-the-antibiotics-data-set-a-data-frame-with-observations-and-variables-"></a></h3>
<h3 id="for-the-antibiotics-data-set-a-data-frame-with-observations-and-variables-">For the antibiotics data set: a <a href="https://rdrr.io/r/base/data.frame.html" class="external-link">data.frame</a> with 464 observations and 14 variables:<a class="anchor" aria-label="anchor" href="#for-the-antibiotics-data-set-a-data-frame-with-observations-and-variables-"></a></h3>
<ul><li><p><code>ab</code><br> Antibiotic ID as used in this package (such as <code>AMC</code>), using the official EARS-Net (European Antimicrobial Resistance Surveillance Network) codes where available</p></li>
<li><p><code>cid</code><br> Compound ID as found in PubChem</p></li>

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<h3 id="machine-readable-interpretation-guidelines">Machine-Readable Interpretation Guidelines<a class="anchor" aria-label="anchor" href="#machine-readable-interpretation-guidelines"></a></h3>
<p>The repository of this package <a href="https://github.com/msberends/AMR/blob/main/data-raw/rsi_translation.txt" class="external-link">contains a machine-readable version</a> of all guidelines. This is a CSV file consisting of 23,451 rows and 10 columns. This file is machine-readable, since it contains one row for every unique combination of the test method (MIC or disk diffusion), the antimicrobial agent and the microorganism. <strong>This allows for easy implementation of these rules in laboratory information systems (LIS)</strong>. Note that it only contains interpretation guidelines for humans - interpretation guidelines from CLSI for animals were removed.</p>
<p>The repository of this package <a href="https://github.com/msberends/AMR/blob/main/data-raw/rsi_translation.txt" class="external-link">contains a machine-readable version</a> of all guidelines. This is a CSV file consisting of 20,318 rows and 11 columns. This file is machine-readable, since it contains one row for every unique combination of the test method (MIC or disk diffusion), the antimicrobial agent and the microorganism. <strong>This allows for easy implementation of these rules in laboratory information systems (LIS)</strong>. Note that it only contains interpretation guidelines for humans - interpretation guidelines from CLSI for animals were removed.</p>
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<p>It is possible to define antibiotic groups instead of single antibiotics for the rule consequence, the part <em>after</em> the tilde. In above examples, the antibiotic group <code>aminopenicillins</code> is used to include ampicillin and amoxicillin. The following groups are allowed (case-insensitive). Within parentheses are the agents that will be matched when running the rule.</p><ul><li><p><code>aminoglycosides</code><br>(amikacin, amikacin/fosfomycin, amphotericin B-high, apramycin, arbekacin, astromicin, bekanamycin, dibekacin, framycetin, gentamicin, gentamicin-high, habekacin, hygromycin, isepamicin, kanamycin, kanamycin-high, kanamycin/cephalexin, micronomicin, neomycin, netilmicin, pentisomicin, plazomicin, propikacin, ribostamycin, sisomicin, streptoduocin, streptomycin, streptomycin-high, tobramycin and tobramycin-high)</p></li>
<li><p><code>aminopenicillins</code><br>(amoxicillin and ampicillin)</p></li>
<li><p><code>antifungals</code><br>(5-fluorocytosine, amphotericin B, anidulafungin, butoconazole, caspofungin, ciclopirox, clotrimazole, econazole, fluconazole, fosfluconazole, griseofulvin, hachimycin, isavuconazole, isoconazole, itraconazole, ketoconazole, micafungin, miconazole, nystatin, pimaricin (Natamycin), posaconazole, ribociclib, sulconazole, terbinafine, terconazole and voriconazole)</p></li>
<li><p><code>antimycobacterials</code><br>(4-aminosalicylic acid, calcium aminosalicylate, capreomycin, clofazimine, delamanid, enviomycin (Tuberactinomycin), ethambutol, ethambutol/isoniazid, ethionamide, isoniazid, morinamide, p-aminosalicylic acid, pretomanid, prothionamide, pyrazinamide, rifabutin, rifampicin, rifampicin/isoniazid, rifampicin/pyrazinamide/ethambutol/isoniazid, rifampicin/pyrazinamide/isoniazid, rifamycin, rifapentine, simvastatin/fenofibrate, sodium aminosalicylate, streptomycin/isoniazid, terizidone, thioacetazone/isoniazid, tiocarlide and viomycin)</p></li>
<li><p><code>betalactams</code><br>(amoxicillin, amoxicillin/clavulanic acid, amoxicillin/sulbactam, ampicillin, ampicillin/sulbactam, apalcillin, aspoxicillin, avibactam, azidocillin, azlocillin, aztreonam, aztreonam/avibactam, bacampicillin, benzathine benzylpenicillin, benzathine phenoxymethylpenicillin, benzylpenicillin, biapenem, carbenicillin, carindacillin, cefacetrile, cefaclor, cefadroxil, cefaloridine, cefamandole, cefatrizine, cefazedone, cefazolin, cefcapene, cefcapene pivoxil, cefdinir, cefditoren, cefditoren pivoxil, cefepime, cefepime/clavulanic acid, cefepime/tazobactam, cefetamet, cefetamet pivoxil, cefetecol (Cefcatacol), cefetrizole, cefixime, cefmenoxime, cefmetazole, cefodizime, cefonicid, cefoperazone, cefoperazone/sulbactam, ceforanide, cefoselis, cefotaxime, cefotaxime/clavulanic acid, cefotaxime/sulbactam, cefotetan, cefotiam, cefotiam hexetil, cefovecin, cefoxitin, cefoxitin screening, cefozopran, cefpimizole, cefpiramide, cefpirome, cefpodoxime, cefpodoxime proxetil, cefpodoxime/clavulanic acid, cefprozil, cefquinome, cefroxadine, cefsulodin, cefsumide, ceftaroline, ceftaroline/avibactam, ceftazidime, ceftazidime/avibactam, ceftazidime/clavulanic acid, cefteram, cefteram pivoxil, ceftezole, ceftibuten, ceftiofur, ceftizoxime, ceftizoxime alapivoxil, ceftobiprole, ceftobiprole medocaril, ceftolozane/enzyme inhibitor, ceftolozane/tazobactam, ceftriaxone, cefuroxime, cefuroxime axetil, cephalexin, cephalothin, cephapirin, cephradine, ciclacillin, clometocillin, cloxacillin, dicloxacillin, doripenem, epicillin, ertapenem, flucloxacillin, hetacillin, imipenem, imipenem/EDTA, imipenem/relebactam, latamoxef, lenampicillin, loracarbef, mecillinam (Amdinocillin), meropenem, meropenem/nacubactam, meropenem/vaborbactam, metampicillin, methicillin, mezlocillin, mezlocillin/sulbactam, nacubactam, nafcillin, oxacillin, panipenem, penamecillin, penicillin/novobiocin, penicillin/sulbactam, phenethicillin, phenoxymethylpenicillin, piperacillin, piperacillin/sulbactam, piperacillin/tazobactam, piridicillin, pivampicillin, pivmecillinam, procaine benzylpenicillin, propicillin, razupenem, ritipenem, ritipenem acoxil, sarmoxicillin, sulbactam, sulbenicillin, sultamicillin, talampicillin, tazobactam, tebipenem, temocillin, ticarcillin and ticarcillin/clavulanic acid)</p></li>
<li><p><code>antifungals</code><br>(5-fluorocytosine, amphotericin B, anidulafungin, butoconazole, caspofungin, ciclopirox, clotrimazole, econazole, fluconazole, fosfluconazole, griseofulvin, hachimycin, ibrexafungerp, isavuconazole, isoconazole, itraconazole, ketoconazole, manogepix, micafungin, miconazole, nystatin, pimaricin, posaconazole, rezafungin, ribociclib, sulconazole, terbinafine, terconazole and voriconazole)</p></li>
<li><p><code>antimycobacterials</code><br>(4-aminosalicylic acid, calcium aminosalicylate, capreomycin, clofazimine, delamanid, enviomycin, ethambutol, ethambutol/isoniazid, ethionamide, isoniazid, morinamide, p-aminosalicylic acid, pretomanid, prothionamide, pyrazinamide, rifabutin, rifampicin, rifampicin/isoniazid, rifampicin/pyrazinamide/ethambutol/isoniazid, rifampicin/pyrazinamide/isoniazid, rifamycin, rifapentine, simvastatin/fenofibrate, sodium aminosalicylate, streptomycin/isoniazid, terizidone, thioacetazone/isoniazid, tiocarlide and viomycin)</p></li>
<li><p><code>betalactams</code><br>(amoxicillin, amoxicillin/clavulanic acid, amoxicillin/sulbactam, ampicillin, ampicillin/sulbactam, apalcillin, aspoxicillin, avibactam, azidocillin, azlocillin, aztreonam, aztreonam/avibactam, aztreonam/nacubactam, bacampicillin, benzathine benzylpenicillin, benzathine phenoxymethylpenicillin, benzylpenicillin, biapenem, carbenicillin, carindacillin, cefacetrile, cefaclor, cefadroxil, cefaloridine, cefamandole, cefatrizine, cefazedone, cefazolin, cefcapene, cefcapene pivoxil, cefdinir, cefditoren, cefditoren pivoxil, cefepime, cefepime/clavulanic acid, cefepime/nacubactam, cefepime/tazobactam, cefetamet, cefetamet pivoxil, cefetecol, cefetrizole, cefixime, cefmenoxime, cefmetazole, cefodizime, cefonicid, cefoperazone, cefoperazone/sulbactam, ceforanide, cefoselis, cefotaxime, cefotaxime/clavulanic acid, cefotaxime/sulbactam, cefotetan, cefotiam, cefotiam hexetil, cefovecin, cefoxitin, cefoxitin screening, cefozopran, cefpimizole, cefpiramide, cefpirome, cefpodoxime, cefpodoxime proxetil, cefpodoxime/clavulanic acid, cefprozil, cefquinome, cefroxadine, cefsulodin, cefsumide, ceftaroline, ceftaroline/avibactam, ceftazidime, ceftazidime/avibactam, ceftazidime/clavulanic acid, cefteram, cefteram pivoxil, ceftezole, ceftibuten, ceftiofur, ceftizoxime, ceftizoxime alapivoxil, ceftobiprole, ceftobiprole medocaril, ceftolozane/enzyme inhibitor, ceftolozane/tazobactam, ceftriaxone, cefuroxime, cefuroxime axetil, cephalexin, cephalothin, cephapirin, cephradine, ciclacillin, clometocillin, cloxacillin, dicloxacillin, doripenem, epicillin, ertapenem, flucloxacillin, hetacillin, imipenem, imipenem/EDTA, imipenem/relebactam, latamoxef, lenampicillin, loracarbef, mecillinam, meropenem, meropenem/nacubactam, meropenem/vaborbactam, metampicillin, methicillin, mezlocillin, mezlocillin/sulbactam, nacubactam, nafcillin, oxacillin, panipenem, penamecillin, penicillin/novobiocin, penicillin/sulbactam, phenethicillin, phenoxymethylpenicillin, piperacillin, piperacillin/sulbactam, piperacillin/tazobactam, piridicillin, pivampicillin, pivmecillinam, procaine benzylpenicillin, propicillin, razupenem, ritipenem, ritipenem acoxil, sarmoxicillin, sulbactam, sulbenicillin, sultamicillin, talampicillin, tazobactam, tebipenem, temocillin, ticarcillin and ticarcillin/clavulanic acid)</p></li>
<li><p><code>carbapenems</code><br>(biapenem, doripenem, ertapenem, imipenem, imipenem/EDTA, imipenem/relebactam, meropenem, meropenem/nacubactam, meropenem/vaborbactam, panipenem, razupenem, ritipenem, ritipenem acoxil and tebipenem)</p></li>
<li><p><code>cephalosporins</code><br>(cefacetrile, cefaclor, cefadroxil, cefaloridine, cefamandole, cefatrizine, cefazedone, cefazolin, cefcapene, cefcapene pivoxil, cefdinir, cefditoren, cefditoren pivoxil, cefepime, cefepime/clavulanic acid, cefepime/tazobactam, cefetamet, cefetamet pivoxil, cefetecol (Cefcatacol), cefetrizole, cefixime, cefmenoxime, cefmetazole, cefodizime, cefonicid, cefoperazone, cefoperazone/sulbactam, ceforanide, cefoselis, cefotaxime, cefotaxime/clavulanic acid, cefotaxime/sulbactam, cefotetan, cefotiam, cefotiam hexetil, cefovecin, cefoxitin, cefoxitin screening, cefozopran, cefpimizole, cefpiramide, cefpirome, cefpodoxime, cefpodoxime proxetil, cefpodoxime/clavulanic acid, cefprozil, cefquinome, cefroxadine, cefsulodin, cefsumide, ceftaroline, ceftaroline/avibactam, ceftazidime, ceftazidime/avibactam, ceftazidime/clavulanic acid, cefteram, cefteram pivoxil, ceftezole, ceftibuten, ceftiofur, ceftizoxime, ceftizoxime alapivoxil, ceftobiprole, ceftobiprole medocaril, ceftolozane/enzyme inhibitor, ceftolozane/tazobactam, ceftriaxone, cefuroxime, cefuroxime axetil, cephalexin, cephalothin, cephapirin, cephradine, latamoxef and loracarbef)</p></li>
<li><p><code>cephalosporins</code><br>(cefacetrile, cefaclor, cefadroxil, cefaloridine, cefamandole, cefatrizine, cefazedone, cefazolin, cefcapene, cefcapene pivoxil, cefdinir, cefditoren, cefditoren pivoxil, cefepime, cefepime/clavulanic acid, cefepime/tazobactam, cefetamet, cefetamet pivoxil, cefetecol, cefetrizole, cefixime, cefmenoxime, cefmetazole, cefodizime, cefonicid, cefoperazone, cefoperazone/sulbactam, ceforanide, cefoselis, cefotaxime, cefotaxime/clavulanic acid, cefotaxime/sulbactam, cefotetan, cefotiam, cefotiam hexetil, cefovecin, cefoxitin, cefoxitin screening, cefozopran, cefpimizole, cefpiramide, cefpirome, cefpodoxime, cefpodoxime proxetil, cefpodoxime/clavulanic acid, cefprozil, cefquinome, cefroxadine, cefsulodin, cefsumide, ceftaroline, ceftaroline/avibactam, ceftazidime, ceftazidime/avibactam, ceftazidime/clavulanic acid, cefteram, cefteram pivoxil, ceftezole, ceftibuten, ceftiofur, ceftizoxime, ceftizoxime alapivoxil, ceftobiprole, ceftobiprole medocaril, ceftolozane/enzyme inhibitor, ceftolozane/tazobactam, ceftriaxone, cefuroxime, cefuroxime axetil, cephalexin, cephalothin, cephapirin, cephradine, latamoxef and loracarbef)</p></li>
<li><p><code>cephalosporins_1st</code><br>(cefacetrile, cefadroxil, cefaloridine, cefatrizine, cefazedone, cefazolin, cefroxadine, ceftezole, cephalexin, cephalothin, cephapirin and cephradine)</p></li>
<li><p><code>cephalosporins_2nd</code><br>(cefaclor, cefamandole, cefmetazole, cefonicid, ceforanide, cefotetan, cefotiam, cefoxitin, cefoxitin screening, cefprozil, cefuroxime, cefuroxime axetil and loracarbef)</p></li>
<li><p><code>cephalosporins_3rd</code><br>(cefcapene, cefcapene pivoxil, cefdinir, cefditoren, cefditoren pivoxil, cefetamet, cefetamet pivoxil, cefixime, cefmenoxime, cefodizime, cefoperazone, cefoperazone/sulbactam, cefotaxime, cefotaxime/clavulanic acid, cefotaxime/sulbactam, cefotiam hexetil, cefovecin, cefpimizole, cefpiramide, cefpodoxime, cefpodoxime proxetil, cefpodoxime/clavulanic acid, cefsulodin, ceftazidime, ceftazidime/avibactam, ceftazidime/clavulanic acid, cefteram, cefteram pivoxil, ceftibuten, ceftiofur, ceftizoxime, ceftizoxime alapivoxil, ceftriaxone and latamoxef)</p></li>
<li><p><code>cephalosporins_4th</code><br>(cefepime, cefepime/clavulanic acid, cefepime/tazobactam, cefetecol (Cefcatacol), cefoselis, cefozopran, cefpirome and cefquinome)</p></li>
<li><p><code>cephalosporins_4th</code><br>(cefepime, cefepime/clavulanic acid, cefepime/tazobactam, cefetecol, cefoselis, cefozopran, cefpirome and cefquinome)</p></li>
<li><p><code>cephalosporins_5th</code><br>(ceftaroline, ceftaroline/avibactam, ceftobiprole, ceftobiprole medocaril, ceftolozane/enzyme inhibitor and ceftolozane/tazobactam)</p></li>
<li><p><code>cephalosporins_except_caz</code><br>(cefacetrile, cefaclor, cefadroxil, cefaloridine, cefamandole, cefatrizine, cefazedone, cefazolin, cefcapene, cefcapene pivoxil, cefdinir, cefditoren, cefditoren pivoxil, cefepime, cefepime/clavulanic acid, cefepime/tazobactam, cefetamet, cefetamet pivoxil, cefetecol (Cefcatacol), cefetrizole, cefixime, cefmenoxime, cefmetazole, cefodizime, cefonicid, cefoperazone, cefoperazone/sulbactam, ceforanide, cefoselis, cefotaxime, cefotaxime/clavulanic acid, cefotaxime/sulbactam, cefotetan, cefotiam, cefotiam hexetil, cefovecin, cefoxitin, cefoxitin screening, cefozopran, cefpimizole, cefpiramide, cefpirome, cefpodoxime, cefpodoxime proxetil, cefpodoxime/clavulanic acid, cefprozil, cefquinome, cefroxadine, cefsulodin, cefsumide, ceftaroline, ceftaroline/avibactam, ceftazidime/avibactam, ceftazidime/clavulanic acid, cefteram, cefteram pivoxil, ceftezole, ceftibuten, ceftiofur, ceftizoxime, ceftizoxime alapivoxil, ceftobiprole, ceftobiprole medocaril, ceftolozane/enzyme inhibitor, ceftolozane/tazobactam, ceftriaxone, cefuroxime, cefuroxime axetil, cephalexin, cephalothin, cephapirin, cephradine, latamoxef and loracarbef)</p></li>
<li><p><code>cephalosporins_except_caz</code><br>(cefacetrile, cefaclor, cefadroxil, cefaloridine, cefamandole, cefatrizine, cefazedone, cefazolin, cefcapene, cefcapene pivoxil, cefdinir, cefditoren, cefditoren pivoxil, cefepime, cefepime/clavulanic acid, cefepime/tazobactam, cefetamet, cefetamet pivoxil, cefetecol, cefetrizole, cefixime, cefmenoxime, cefmetazole, cefodizime, cefonicid, cefoperazone, cefoperazone/sulbactam, ceforanide, cefoselis, cefotaxime, cefotaxime/clavulanic acid, cefotaxime/sulbactam, cefotetan, cefotiam, cefotiam hexetil, cefovecin, cefoxitin, cefoxitin screening, cefozopran, cefpimizole, cefpiramide, cefpirome, cefpodoxime, cefpodoxime proxetil, cefpodoxime/clavulanic acid, cefprozil, cefquinome, cefroxadine, cefsulodin, cefsumide, ceftaroline, ceftaroline/avibactam, ceftazidime/avibactam, ceftazidime/clavulanic acid, cefteram, cefteram pivoxil, ceftezole, ceftibuten, ceftiofur, ceftizoxime, ceftizoxime alapivoxil, ceftobiprole, ceftobiprole medocaril, ceftolozane/enzyme inhibitor, ceftolozane/tazobactam, ceftriaxone, cefuroxime, cefuroxime axetil, cephalexin, cephalothin, cephapirin, cephradine, latamoxef and loracarbef)</p></li>
<li><p><code>fluoroquinolones</code><br>(besifloxacin, ciprofloxacin, clinafloxacin, danofloxacin, delafloxacin, difloxacin, enoxacin, enrofloxacin, finafloxacin, fleroxacin, garenoxacin, gatifloxacin, gemifloxacin, grepafloxacin, levofloxacin, levonadifloxacin, lomefloxacin, marbofloxacin, metioxate, miloxacin, moxifloxacin, nadifloxacin, nifuroquine, norfloxacin, ofloxacin, orbifloxacin, pazufloxacin, pefloxacin, pradofloxacin, premafloxacin, prulifloxacin, rufloxacin, sarafloxacin, sitafloxacin, sparfloxacin, temafloxacin, tilbroquinol, tioxacin, tosufloxacin and trovafloxacin)</p></li>
<li><p><code>glycopeptides</code><br>(avoparcin, dalbavancin, norvancomycin, oritavancin, ramoplanin, teicoplanin, teicoplanin-macromethod, telavancin, vancomycin and vancomycin-macromethod)</p></li>
<li><p><code>glycopeptides_except_lipo</code><br>(avoparcin, norvancomycin, ramoplanin, teicoplanin, teicoplanin-macromethod, vancomycin and vancomycin-macromethod)</p></li>
<li><p><code>lincosamides</code><br>(acetylmidecamycin, acetylspiramycin, clindamycin, gamithromycin, kitasamycin (Leucomycin), lincomycin, meleumycin, nafithromycin, pirlimycin, primycin, solithromycin, tildipirosin, tilmicosin, tulathromycin, tylosin and tylvalosin)</p></li>
<li><p><code>lincosamides</code><br>(acetylmidecamycin, acetylspiramycin, clindamycin, gamithromycin, kitasamycin, lincomycin, meleumycin, nafithromycin, pirlimycin, primycin, solithromycin, tildipirosin, tilmicosin, tulathromycin, tylosin and tylvalosin)</p></li>
<li><p><code>lipoglycopeptides</code><br>(dalbavancin, oritavancin and telavancin)</p></li>
<li><p><code>macrolides</code><br>(acetylmidecamycin, acetylspiramycin, azithromycin, clarithromycin, dirithromycin, erythromycin, flurithromycin, gamithromycin, josamycin, kitasamycin (Leucomycin), meleumycin, midecamycin, miocamycin, nafithromycin, oleandomycin, pirlimycin, primycin, rokitamycin, roxithromycin, solithromycin, spiramycin, telithromycin, tildipirosin, tilmicosin, troleandomycin, tulathromycin, tylosin and tylvalosin)</p></li>
<li><p><code>macrolides</code><br>(acetylmidecamycin, acetylspiramycin, azithromycin, clarithromycin, dirithromycin, erythromycin, flurithromycin, gamithromycin, josamycin, kitasamycin, meleumycin, midecamycin, miocamycin, nafithromycin, oleandomycin, pirlimycin, primycin, rokitamycin, roxithromycin, solithromycin, spiramycin, telithromycin, tildipirosin, tilmicosin, troleandomycin, tulathromycin, tylosin and tylvalosin)</p></li>
<li><p><code>oxazolidinones</code><br>(cadazolid, cycloserine, linezolid, tedizolid and thiacetazone)</p></li>
<li><p><code>penicillins</code><br>(amoxicillin, amoxicillin/clavulanic acid, amoxicillin/sulbactam, ampicillin, ampicillin/sulbactam, apalcillin, aspoxicillin, avibactam, azidocillin, azlocillin, aztreonam, aztreonam/avibactam, bacampicillin, benzathine benzylpenicillin, benzathine phenoxymethylpenicillin, benzylpenicillin, carbenicillin, carindacillin, ciclacillin, clometocillin, cloxacillin, dicloxacillin, epicillin, flucloxacillin, hetacillin, lenampicillin, mecillinam (Amdinocillin), metampicillin, methicillin, mezlocillin, mezlocillin/sulbactam, nacubactam, nafcillin, oxacillin, penamecillin, penicillin/novobiocin, penicillin/sulbactam, phenethicillin, phenoxymethylpenicillin, piperacillin, piperacillin/sulbactam, piperacillin/tazobactam, piridicillin, pivampicillin, pivmecillinam, procaine benzylpenicillin, propicillin, sarmoxicillin, sulbactam, sulbenicillin, sultamicillin, talampicillin, tazobactam, temocillin, ticarcillin and ticarcillin/clavulanic acid)</p></li>
<li><p><code>penicillins</code><br>(amoxicillin, amoxicillin/clavulanic acid, amoxicillin/sulbactam, ampicillin, ampicillin/sulbactam, apalcillin, aspoxicillin, avibactam, azidocillin, azlocillin, aztreonam, aztreonam/avibactam, aztreonam/nacubactam, bacampicillin, benzathine benzylpenicillin, benzathine phenoxymethylpenicillin, benzylpenicillin, carbenicillin, carindacillin, cefepime/nacubactam, ciclacillin, clometocillin, cloxacillin, dicloxacillin, epicillin, flucloxacillin, hetacillin, lenampicillin, mecillinam, metampicillin, methicillin, mezlocillin, mezlocillin/sulbactam, nacubactam, nafcillin, oxacillin, penamecillin, penicillin/novobiocin, penicillin/sulbactam, phenethicillin, phenoxymethylpenicillin, piperacillin, piperacillin/sulbactam, piperacillin/tazobactam, piridicillin, pivampicillin, pivmecillinam, procaine benzylpenicillin, propicillin, sarmoxicillin, sulbactam, sulbenicillin, sultamicillin, talampicillin, tazobactam, temocillin, ticarcillin and ticarcillin/clavulanic acid)</p></li>
<li><p><code>polymyxins</code><br>(colistin, polymyxin B and polymyxin B/polysorbate 80)</p></li>
<li><p><code>quinolones</code><br>(besifloxacin, cinoxacin, ciprofloxacin, clinafloxacin, danofloxacin, delafloxacin, difloxacin, enoxacin, enrofloxacin, finafloxacin, fleroxacin, flumequine, garenoxacin, gatifloxacin, gemifloxacin, grepafloxacin, levofloxacin, levonadifloxacin, lomefloxacin, marbofloxacin, metioxate, miloxacin, moxifloxacin, nadifloxacin, nalidixic acid, nifuroquine, nitroxoline, norfloxacin, ofloxacin, orbifloxacin, oxolinic acid, pazufloxacin, pefloxacin, pipemidic acid, piromidic acid, pradofloxacin, premafloxacin, prulifloxacin, rosoxacin, rufloxacin, sarafloxacin, sitafloxacin, sparfloxacin, temafloxacin, tilbroquinol, tioxacin, tosufloxacin and trovafloxacin)</p></li>
<li><p><code>streptogramins</code><br>(pristinamycin and quinupristin/dalfopristin)</p></li>

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</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>

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</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>
@ -294,7 +294,7 @@
</tr><tr><td>
<p><code><a href="antibiotics.html">antibiotics</a></code> <code><a href="antibiotics.html">antivirals</a></code> </p>
</td>
<td><p>Data Sets with 558 Antimicrobial Drugs</p></td>
<td><p>Data Sets with 566 Antimicrobial Drugs</p></td>
</tr><tr><td>
<p><code><a href="intrinsic_resistant.html">intrinsic_resistant</a></code> </p>
</td>

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</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>

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</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>
@ -177,7 +177,7 @@
<span class="op">)</span>
<span class="co"># S3 method for mic</span>
<span class="fu">autoplot</span><span class="op">(</span>
<span class="fu"><a href="https://ggplot2.tidyverse.org/reference/autoplot.html" class="external-link">autoplot</a></span><span class="op">(</span>
<span class="va">object</span>,
mo <span class="op">=</span> <span class="cn">NULL</span>,
ab <span class="op">=</span> <span class="cn">NULL</span>,
@ -192,7 +192,7 @@
<span class="op">)</span>
<span class="co"># S3 method for mic</span>
<span class="fu">fortify</span><span class="op">(</span><span class="va">object</span>, <span class="va">...</span><span class="op">)</span>
<span class="fu"><a href="https://ggplot2.tidyverse.org/reference/fortify.html" class="external-link">fortify</a></span><span class="op">(</span><span class="va">object</span>, <span class="va">...</span><span class="op">)</span>
<span class="co"># S3 method for disk</span>
<span class="fu">plot</span><span class="op">(</span>
@ -210,7 +210,7 @@
<span class="op">)</span>
<span class="co"># S3 method for disk</span>
<span class="fu">autoplot</span><span class="op">(</span>
<span class="fu"><a href="https://ggplot2.tidyverse.org/reference/autoplot.html" class="external-link">autoplot</a></span><span class="op">(</span>
<span class="va">object</span>,
mo <span class="op">=</span> <span class="cn">NULL</span>,
ab <span class="op">=</span> <span class="cn">NULL</span>,
@ -225,7 +225,7 @@
<span class="op">)</span>
<span class="co"># S3 method for disk</span>
<span class="fu">fortify</span><span class="op">(</span><span class="va">object</span>, <span class="va">...</span><span class="op">)</span>
<span class="fu"><a href="https://ggplot2.tidyverse.org/reference/fortify.html" class="external-link">fortify</a></span><span class="op">(</span><span class="va">object</span>, <span class="va">...</span><span class="op">)</span>
<span class="co"># S3 method for rsi</span>
<span class="fu">plot</span><span class="op">(</span>
@ -237,7 +237,7 @@
<span class="op">)</span>
<span class="co"># S3 method for rsi</span>
<span class="fu">autoplot</span><span class="op">(</span>
<span class="fu"><a href="https://ggplot2.tidyverse.org/reference/autoplot.html" class="external-link">autoplot</a></span><span class="op">(</span>
<span class="va">object</span>,
title <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/paste.html" class="external-link">paste</a></span><span class="op">(</span><span class="st">"Resistance Overview of"</span>, <span class="fu"><a href="https://rdrr.io/r/base/deparse.html" class="external-link">deparse</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/substitute.html" class="external-link">substitute</a></span><span class="op">(</span><span class="va">object</span><span class="op">)</span><span class="op">)</span><span class="op">)</span>,
xlab <span class="op">=</span> <span class="st">"Antimicrobial Interpretation"</span>,
@ -248,7 +248,7 @@
<span class="op">)</span>
<span class="co"># S3 method for rsi</span>
<span class="fu">fortify</span><span class="op">(</span><span class="va">object</span>, <span class="va">...</span><span class="op">)</span></code></pre></div></div>
<span class="fu"><a href="https://ggplot2.tidyverse.org/reference/fortify.html" class="external-link">fortify</a></span><span class="op">(</span><span class="va">object</span>, <span class="va">...</span><span class="op">)</span></code></pre></div></div>
<div id="arguments">
<h2>Arguments</h2>

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@ -18,7 +18,7 @@ resistance() should be used to calculate resistance, susceptibility() should be
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>

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@ -17,7 +17,7 @@
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>
@ -165,10 +165,11 @@
<div id="format">
<h2>Format</h2>
<p>A <a href="https://rdrr.io/r/base/data.frame.html" class="external-link">data.frame</a> with 23,451 observations and 10 variables:</p><ul><li><p><code>guideline</code><br> Name of the guideline</p></li>
<p>A <a href="https://rdrr.io/r/base/data.frame.html" class="external-link">data.frame</a> with 20,318 observations and 11 variables:</p><ul><li><p><code>guideline</code><br> Name of the guideline</p></li>
<li><p><code>method</code><br> Either "DISK" or "MIC"</p></li>
<li><p><code>site</code><br> Body site, e.g. "Oral" or "Respiratory"</p></li>
<li><p><code>mo</code><br> Microbial ID, see <code><a href="as.mo.html">as.mo()</a></code></p></li>
<li><p><code>rank_index</code><br> Taxonomic rank index of <code>mo</code> from 1 (subspecies/infraspecies) to 5 (unknown microorganism)</p></li>
<li><p><code>ab</code><br> Antibiotic ID, see <code><a href="as.ab.html">as.ab()</a></code></p></li>
<li><p><code>ref_tbl</code><br> Info about where the guideline rule can be found</p></li>
<li><p><code>disk_dose</code><br> Dose of the used disk diffusion method</p></li>
@ -178,7 +179,7 @@
</ul></div>
<div id="details">
<h2>Details</h2>
<p>The repository of this <code>AMR</code> package contains a file comprising this exact data set: <a href="https://github.com/msberends/AMR/blob/main/data-raw/rsi_translation.txt" class="external-link">https://github.com/msberends/AMR/blob/main/data-raw/rsi_translation.txt</a>. This file <strong>allows for machine reading EUCAST and CLSI guidelines</strong>, which is almost impossible with the Excel and PDF files distributed by EUCAST and CLSI. The file is updated automatically.</p>
<p>The repository of this <code>AMR</code> package contains a file comprising this exact data set: <a href="https://github.com/msberends/AMR/blob/main/data-raw/rsi_translation.txt" class="external-link">https://github.com/msberends/AMR/blob/main/data-raw/rsi_translation.txt</a>. This file <strong>allows for machine reading EUCAST and CLSI guidelines</strong>, which is almost impossible with the Excel and PDF files distributed by EUCAST and CLSI. The file is updated automatically and the <code>mo</code> and <code>ab</code> columns have been transformed to contain the full official names instead of codes.</p>
</div>
<div id="reference-data-publicly-available">
<h2>Reference Data Publicly Available</h2>

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@ -17,7 +17,7 @@
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>

2
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@ -17,7 +17,7 @@
</button>
<span class="navbar-brand">
<a class="navbar-link" href="index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9069</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9070</span>
</span>
</div>

2
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@ -1,8 +1,6 @@
# `AMR` (for R) <img src="./logo.svg" align="right"/>
> Update: The latest [EUCAST guideline for intrinsic resistance](https://www.eucast.org/expert_rules_and_intrinsic_resistance/) (v3.3, October 2021) is now supported, the CLSI 2021 interpretation guideline is now supported, and our taxonomy tables have been updated as well (LPSN, 5 October 2021).
>
> **A new version will be released after the [EUCAST guideline for clinical breakpoints](https://www.eucast.org/clinical_breakpoints/) (v12.0, likely January 2022) are implemented as well, to be expected shortly after the official guideline release.**
### What is `AMR` (for R)?

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@ -23,8 +23,9 @@
# how to conduct AMR data analysis: https://msberends.github.io/AMR/ #
# ==================================================================== #
# Check if these function still exist in the package (all are in Suggests field)
# Check if these functions still exist in their package (all are in Suggests field)
# Since GitHub Actions runs every night, we will get emailed when a dependency fails based on this unit test
# functions used by import_fn()
import_functions <- c(
"anti_join" = "dplyr",
@ -41,6 +42,7 @@ import_functions <- c(
"insertText" = "rstudioapi",
"left_join" = "dplyr",
"new_pillar_shaft_simple" = "pillar",
"progress_bar" = "progress",
"read_html" = "xml2",
"right_join" = "dplyr",
"semi_join" = "dplyr",

2
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@ -9,7 +9,7 @@ Welcome to the \code{AMR} package.
\details{
\code{AMR} is a free, open-source and independent \R package 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 antimicrobial resistance data analysis, that can therefore empower epidemiological analyses to continuously enable surveillance and treatment evaluation in any setting.
After installing this package, \R knows ~71,000 distinct microbial species and all ~560 antibiotic, antimycotic and antiviral drugs by name and code (including ATC, EARS-NET, 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 ~71,000 distinct microbial species and all ~570 antibiotic, antimycotic and antiviral drugs by name and code (including ATC, EARS-NET, LOINC and SNOMED CT), and knows all about valid R/SI and MIC values. It supports any data format, including WHONET/EARS-Net data.
This package is fully independent of any other \R package and works on Windows, macOS and Linux with all versions of \R since R-3.0.0 (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, in collaboration with non-profit organisations Certe Medical Diagnostics and Advice and University Medical Center Groningen. This \R package is actively maintained and free software; you can freely use and distribute it for both personal and commercial (but not patent) purposes under the terms of the GNU General Public License version 2.0 (GPL-2), as published by the Free Software Foundation.

16
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@ -138,23 +138,23 @@ The \code{\link[=not_intrinsic_resistant]{not_intrinsic_resistant()}} function c
\itemize{
\item \code{\link[=aminoglycosides]{aminoglycosides()}} can select: \cr amikacin (AMK), amikacin/fosfomycin (AKF), amphotericin B-high (AMH), apramycin (APR), arbekacin (ARB), astromicin (AST), bekanamycin (BEK), dibekacin (DKB), framycetin (FRM), gentamicin (GEN), gentamicin-high (GEH), habekacin (HAB), hygromycin (HYG), isepamicin (ISE), kanamycin (KAN), kanamycin-high (KAH), kanamycin/cephalexin (KAC), micronomicin (MCR), neomycin (NEO), netilmicin (NET), pentisomicin (PIM), plazomicin (PLZ), propikacin (PKA), ribostamycin (RST), sisomicin (SIS), streptoduocin (STR), streptomycin (STR1), streptomycin-high (STH), tobramycin (TOB) and tobramycin-high (TOH)
\item \code{\link[=aminopenicillins]{aminopenicillins()}} can select: \cr amoxicillin (AMX) and ampicillin (AMP)
\item \code{\link[=antifungals]{antifungals()}} can select: \cr 5-fluorocytosine (FCT), amphotericin B (AMB), anidulafungin (ANI), butoconazole (BUT), caspofungin (CAS), ciclopirox (CIX), clotrimazole (CTR), econazole (ECO), fluconazole (FLU), fosfluconazole (FFL), griseofulvin (GRI), hachimycin (HCH), isavuconazole (ISV), isoconazole (ISO), itraconazole (ITR), ketoconazole (KET), micafungin (MIF), miconazole (MCZ), nystatin (NYS), pimaricin (Natamycin) (PMR), posaconazole (POS), ribociclib (RBC), sulconazole (SUC), terbinafine (TRB), terconazole (TRC) and voriconazole (VOR)
\item \code{\link[=antimycobacterials]{antimycobacterials()}} can select: \cr 4-aminosalicylic acid (AMA), calcium aminosalicylate (CLA), capreomycin (CAP), clofazimine (CLF), delamanid (DLM), enviomycin (Tuberactinomycin) (ENV), ethambutol (ETH), ethambutol/isoniazid (ETI), ethionamide (ETI1), isoniazid (INH), morinamide (MRN), p-aminosalicylic acid (PAS), pretomanid (PMD), prothionamide (PTH), pyrazinamide (PZA), rifabutin (RIB), rifampicin (RIF), rifampicin/isoniazid (RFI), rifampicin/pyrazinamide/ethambutol/isoniazid (RPEI), rifampicin/pyrazinamide/isoniazid (RPI), rifamycin (RFM), rifapentine (RFP), simvastatin/fenofibrate (SMF), sodium aminosalicylate (SDA), streptomycin/isoniazid (STI), terizidone (TRZ), thioacetazone/isoniazid (THI1), tiocarlide (TCR) and viomycin (VIO)
\item \code{\link[=betalactams]{betalactams()}} can select: \cr amoxicillin (AMX), amoxicillin/clavulanic acid (AMC), amoxicillin/sulbactam (AXS), ampicillin (AMP), ampicillin/sulbactam (SAM), apalcillin (APL), aspoxicillin (APX), avibactam (AVB), azidocillin (AZD), azlocillin (AZL), aztreonam (ATM), aztreonam/avibactam (AZA), bacampicillin (BAM), benzathine benzylpenicillin (BNB), benzathine phenoxymethylpenicillin (BNP), benzylpenicillin (PEN), biapenem (BIA), carbenicillin (CRB), carindacillin (CRN), cefacetrile (CAC), cefaclor (CEC), cefadroxil (CFR), cefaloridine (RID), cefamandole (MAN), cefatrizine (CTZ), cefazedone (CZD), cefazolin (CZO), cefcapene (CCP), cefcapene pivoxil (CCX), cefdinir (CDR), cefditoren (DIT), cefditoren pivoxil (DIX), cefepime (FEP), cefepime/clavulanic acid (CPC), cefepime/tazobactam (FPT), cefetamet (CAT), cefetamet pivoxil (CPI), cefetecol (Cefcatacol) (CCL), cefetrizole (CZL), cefixime (CFM), cefmenoxime (CMX), cefmetazole (CMZ), cefodizime (DIZ), cefonicid (CID), cefoperazone (CFP), cefoperazone/sulbactam (CSL), ceforanide (CND), cefoselis (CSE), cefotaxime (CTX), cefotaxime/clavulanic acid (CTC), cefotaxime/sulbactam (CTS), cefotetan (CTT), cefotiam (CTF), cefotiam hexetil (CHE), cefovecin (FOV), cefoxitin (FOX), cefoxitin screening (FOX1), cefozopran (ZOP), cefpimizole (CFZ), cefpiramide (CPM), cefpirome (CPO), cefpodoxime (CPD), cefpodoxime proxetil (CPX), cefpodoxime/clavulanic acid (CDC), cefprozil (CPR), cefquinome (CEQ), cefroxadine (CRD), cefsulodin (CFS), cefsumide (CSU), ceftaroline (CPT), ceftaroline/avibactam (CPA), ceftazidime (CAZ), ceftazidime/avibactam (CZA), ceftazidime/clavulanic acid (CCV), cefteram (CEM), cefteram pivoxil (CPL), ceftezole (CTL), ceftibuten (CTB), ceftiofur (TIO), ceftizoxime (CZX), ceftizoxime alapivoxil (CZP), ceftobiprole (BPR), ceftobiprole medocaril (CFM1), ceftolozane/enzyme inhibitor (CEI), ceftolozane/tazobactam (CZT), ceftriaxone (CRO), cefuroxime (CXM), cefuroxime axetil (CXA), cephalexin (LEX), cephalothin (CEP), cephapirin (HAP), cephradine (CED), ciclacillin (CIC), clometocillin (CLM), cloxacillin (CLO), dicloxacillin (DIC), doripenem (DOR), epicillin (EPC), ertapenem (ETP), flucloxacillin (FLC), hetacillin (HET), imipenem (IPM), imipenem/EDTA (IPE), imipenem/relebactam (IMR), latamoxef (LTM), lenampicillin (LEN), loracarbef (LOR), mecillinam (Amdinocillin) (MEC), meropenem (MEM), meropenem/nacubactam (MNC), meropenem/vaborbactam (MEV), metampicillin (MTM), methicillin (MET), mezlocillin (MEZ), mezlocillin/sulbactam (MSU), nacubactam (NAC), nafcillin (NAF), oxacillin (OXA), panipenem (PAN), penamecillin (PNM), penicillin/novobiocin (PNO), penicillin/sulbactam (PSU), phenethicillin (PHE), phenoxymethylpenicillin (PHN), piperacillin (PIP), piperacillin/sulbactam (PIS), piperacillin/tazobactam (TZP), piridicillin (PRC), pivampicillin (PVM), pivmecillinam (PME), procaine benzylpenicillin (PRB), propicillin (PRP), razupenem (RZM), ritipenem (RIT), ritipenem acoxil (RIA), sarmoxicillin (SRX), sulbactam (SUL), sulbenicillin (SBC), sultamicillin (SLT6), talampicillin (TAL), tazobactam (TAZ), tebipenem (TBP), temocillin (TEM), ticarcillin (TIC) and ticarcillin/clavulanic acid (TCC)
\item \code{\link[=antifungals]{antifungals()}} can select: \cr 5-fluorocytosine (FCT), amphotericin B (AMB), anidulafungin (ANI), butoconazole (BUT), caspofungin (CAS), ciclopirox (CIX), clotrimazole (CTR), econazole (ECO), fluconazole (FLU), fosfluconazole (FFL), griseofulvin (GRI), hachimycin (HCH), ibrexafungerp (IBX), isavuconazole (ISV), isoconazole (ISO), itraconazole (ITR), ketoconazole (KET), manogepix (MGX), micafungin (MIF), miconazole (MCZ), nystatin (NYS), pimaricin (PMR), posaconazole (POS), rezafungin (RZF), ribociclib (RBC), sulconazole (SUC), terbinafine (TRB), terconazole (TRC) and voriconazole (VOR)
\item \code{\link[=antimycobacterials]{antimycobacterials()}} can select: \cr 4-aminosalicylic acid (AMA), calcium aminosalicylate (CLA), capreomycin (CAP), clofazimine (CLF), delamanid (DLM), enviomycin (ENV), ethambutol (ETH), ethambutol/isoniazid (ETI), ethionamide (ETI1), isoniazid (INH), morinamide (MRN), p-aminosalicylic acid (PAS), pretomanid (PMD), prothionamide (PTH), pyrazinamide (PZA), rifabutin (RIB), rifampicin (RIF), rifampicin/isoniazid (RFI), rifampicin/pyrazinamide/ethambutol/isoniazid (RPEI), rifampicin/pyrazinamide/isoniazid (RPI), rifamycin (RFM), rifapentine (RFP), simvastatin/fenofibrate (SMF), sodium aminosalicylate (SDA), streptomycin/isoniazid (STI), terizidone (TRZ), thioacetazone/isoniazid (THI1), tiocarlide (TCR) and viomycin (VIO)
\item \code{\link[=betalactams]{betalactams()}} can select: \cr amoxicillin (AMX), amoxicillin/clavulanic acid (AMC), amoxicillin/sulbactam (AXS), ampicillin (AMP), ampicillin/sulbactam (SAM), apalcillin (APL), aspoxicillin (APX), avibactam (AVB), azidocillin (AZD), azlocillin (AZL), aztreonam (ATM), aztreonam/avibactam (AZA), aztreonam/nacubactam (ANC), bacampicillin (BAM), benzathine benzylpenicillin (BNB), benzathine phenoxymethylpenicillin (BNP), benzylpenicillin (PEN), biapenem (BIA), carbenicillin (CRB), carindacillin (CRN), cefacetrile (CAC), cefaclor (CEC), cefadroxil (CFR), cefaloridine (RID), cefamandole (MAN), cefatrizine (CTZ), cefazedone (CZD), cefazolin (CZO), cefcapene (CCP), cefcapene pivoxil (CCX), cefdinir (CDR), cefditoren (DIT), cefditoren pivoxil (DIX), cefepime (FEP), cefepime/clavulanic acid (CPC), cefepime/nacubactam (FNC), cefepime/tazobactam (FPT), cefetamet (CAT), cefetamet pivoxil (CPI), cefetecol (CCL), cefetrizole (CZL), cefixime (CFM), cefmenoxime (CMX), cefmetazole (CMZ), cefodizime (DIZ), cefonicid (CID), cefoperazone (CFP), cefoperazone/sulbactam (CSL), ceforanide (CND), cefoselis (CSE), cefotaxime (CTX), cefotaxime/clavulanic acid (CTC), cefotaxime/sulbactam (CTS), cefotetan (CTT), cefotiam (CTF), cefotiam hexetil (CHE), cefovecin (FOV), cefoxitin (FOX), cefoxitin screening (FOX1), cefozopran (ZOP), cefpimizole (CFZ), cefpiramide (CPM), cefpirome (CPO), cefpodoxime (CPD), cefpodoxime proxetil (CPX), cefpodoxime/clavulanic acid (CDC), cefprozil (CPR), cefquinome (CEQ), cefroxadine (CRD), cefsulodin (CFS), cefsumide (CSU), ceftaroline (CPT), ceftaroline/avibactam (CPA), ceftazidime (CAZ), ceftazidime/avibactam (CZA), ceftazidime/clavulanic acid (CCV), cefteram (CEM), cefteram pivoxil (CPL), ceftezole (CTL), ceftibuten (CTB), ceftiofur (TIO), ceftizoxime (CZX), ceftizoxime alapivoxil (CZP), ceftobiprole (BPR), ceftobiprole medocaril (CFM1), ceftolozane/enzyme inhibitor (CEI), ceftolozane/tazobactam (CZT), ceftriaxone (CRO), cefuroxime (CXM), cefuroxime axetil (CXA), cephalexin (LEX), cephalothin (CEP), cephapirin (HAP), cephradine (CED), ciclacillin (CIC), clometocillin (CLM), cloxacillin (CLO), dicloxacillin (DIC), doripenem (DOR), epicillin (EPC), ertapenem (ETP), flucloxacillin (FLC), hetacillin (HET), imipenem (IPM), imipenem/EDTA (IPE), imipenem/relebactam (IMR), latamoxef (LTM), lenampicillin (LEN), loracarbef (LOR), mecillinam (MEC), meropenem (MEM), meropenem/nacubactam (MNC), meropenem/vaborbactam (MEV), metampicillin (MTM), methicillin (MET), mezlocillin (MEZ), mezlocillin/sulbactam (MSU), nacubactam (NAC), nafcillin (NAF), oxacillin (OXA), panipenem (PAN), penamecillin (PNM), penicillin/novobiocin (PNO), penicillin/sulbactam (PSU), phenethicillin (PHE), phenoxymethylpenicillin (PHN), piperacillin (PIP), piperacillin/sulbactam (PIS), piperacillin/tazobactam (TZP), piridicillin (PRC), pivampicillin (PVM), pivmecillinam (PME), procaine benzylpenicillin (PRB), propicillin (PRP), razupenem (RZM), ritipenem (RIT), ritipenem acoxil (RIA), sarmoxicillin (SRX), sulbactam (SUL), sulbenicillin (SBC), sultamicillin (SLT6), talampicillin (TAL), tazobactam (TAZ), tebipenem (TBP), temocillin (TEM), ticarcillin (TIC) and ticarcillin/clavulanic acid (TCC)
\item \code{\link[=carbapenems]{carbapenems()}} can select: \cr biapenem (BIA), doripenem (DOR), ertapenem (ETP), imipenem (IPM), imipenem/EDTA (IPE), imipenem/relebactam (IMR), meropenem (MEM), meropenem/nacubactam (MNC), meropenem/vaborbactam (MEV), panipenem (PAN), razupenem (RZM), ritipenem (RIT), ritipenem acoxil (RIA) and tebipenem (TBP)
\item \code{\link[=cephalosporins]{cephalosporins()}} can select: \cr cefacetrile (CAC), cefaclor (CEC), cefadroxil (CFR), cefaloridine (RID), cefamandole (MAN), cefatrizine (CTZ), cefazedone (CZD), cefazolin (CZO), cefcapene (CCP), cefcapene pivoxil (CCX), cefdinir (CDR), cefditoren (DIT), cefditoren pivoxil (DIX), cefepime (FEP), cefepime/clavulanic acid (CPC), cefepime/tazobactam (FPT), cefetamet (CAT), cefetamet pivoxil (CPI), cefetecol (Cefcatacol) (CCL), cefetrizole (CZL), cefixime (CFM), cefmenoxime (CMX), cefmetazole (CMZ), cefodizime (DIZ), cefonicid (CID), cefoperazone (CFP), cefoperazone/sulbactam (CSL), ceforanide (CND), cefoselis (CSE), cefotaxime (CTX), cefotaxime/clavulanic acid (CTC), cefotaxime/sulbactam (CTS), cefotetan (CTT), cefotiam (CTF), cefotiam hexetil (CHE), cefovecin (FOV), cefoxitin (FOX), cefoxitin screening (FOX1), cefozopran (ZOP), cefpimizole (CFZ), cefpiramide (CPM), cefpirome (CPO), cefpodoxime (CPD), cefpodoxime proxetil (CPX), cefpodoxime/clavulanic acid (CDC), cefprozil (CPR), cefquinome (CEQ), cefroxadine (CRD), cefsulodin (CFS), cefsumide (CSU), ceftaroline (CPT), ceftaroline/avibactam (CPA), ceftazidime (CAZ), ceftazidime/avibactam (CZA), ceftazidime/clavulanic acid (CCV), cefteram (CEM), cefteram pivoxil (CPL), ceftezole (CTL), ceftibuten (CTB), ceftiofur (TIO), ceftizoxime (CZX), ceftizoxime alapivoxil (CZP), ceftobiprole (BPR), ceftobiprole medocaril (CFM1), ceftolozane/enzyme inhibitor (CEI), ceftolozane/tazobactam (CZT), ceftriaxone (CRO), cefuroxime (CXM), cefuroxime axetil (CXA), cephalexin (LEX), cephalothin (CEP), cephapirin (HAP), cephradine (CED), latamoxef (LTM) and loracarbef (LOR)
\item \code{\link[=cephalosporins]{cephalosporins()}} can select: \cr cefacetrile (CAC), cefaclor (CEC), cefadroxil (CFR), cefaloridine (RID), cefamandole (MAN), cefatrizine (CTZ), cefazedone (CZD), cefazolin (CZO), cefcapene (CCP), cefcapene pivoxil (CCX), cefdinir (CDR), cefditoren (DIT), cefditoren pivoxil (DIX), cefepime (FEP), cefepime/clavulanic acid (CPC), cefepime/tazobactam (FPT), cefetamet (CAT), cefetamet pivoxil (CPI), cefetecol (CCL), cefetrizole (CZL), cefixime (CFM), cefmenoxime (CMX), cefmetazole (CMZ), cefodizime (DIZ), cefonicid (CID), cefoperazone (CFP), cefoperazone/sulbactam (CSL), ceforanide (CND), cefoselis (CSE), cefotaxime (CTX), cefotaxime/clavulanic acid (CTC), cefotaxime/sulbactam (CTS), cefotetan (CTT), cefotiam (CTF), cefotiam hexetil (CHE), cefovecin (FOV), cefoxitin (FOX), cefoxitin screening (FOX1), cefozopran (ZOP), cefpimizole (CFZ), cefpiramide (CPM), cefpirome (CPO), cefpodoxime (CPD), cefpodoxime proxetil (CPX), cefpodoxime/clavulanic acid (CDC), cefprozil (CPR), cefquinome (CEQ), cefroxadine (CRD), cefsulodin (CFS), cefsumide (CSU), ceftaroline (CPT), ceftaroline/avibactam (CPA), ceftazidime (CAZ), ceftazidime/avibactam (CZA), ceftazidime/clavulanic acid (CCV), cefteram (CEM), cefteram pivoxil (CPL), ceftezole (CTL), ceftibuten (CTB), ceftiofur (TIO), ceftizoxime (CZX), ceftizoxime alapivoxil (CZP), ceftobiprole (BPR), ceftobiprole medocaril (CFM1), ceftolozane/enzyme inhibitor (CEI), ceftolozane/tazobactam (CZT), ceftriaxone (CRO), cefuroxime (CXM), cefuroxime axetil (CXA), cephalexin (LEX), cephalothin (CEP), cephapirin (HAP), cephradine (CED), latamoxef (LTM) and loracarbef (LOR)
\item \code{\link[=cephalosporins_1st]{cephalosporins_1st()}} can select: \cr cefacetrile (CAC), cefadroxil (CFR), cefaloridine (RID), cefatrizine (CTZ), cefazedone (CZD), cefazolin (CZO), cefroxadine (CRD), ceftezole (CTL), cephalexin (LEX), cephalothin (CEP), cephapirin (HAP) and cephradine (CED)
\item \code{\link[=cephalosporins_2nd]{cephalosporins_2nd()}} can select: \cr cefaclor (CEC), cefamandole (MAN), cefmetazole (CMZ), cefonicid (CID), ceforanide (CND), cefotetan (CTT), cefotiam (CTF), cefoxitin (FOX), cefoxitin screening (FOX1), cefprozil (CPR), cefuroxime (CXM), cefuroxime axetil (CXA) and loracarbef (LOR)
\item \code{\link[=cephalosporins_3rd]{cephalosporins_3rd()}} can select: \cr cefcapene (CCP), cefcapene pivoxil (CCX), cefdinir (CDR), cefditoren (DIT), cefditoren pivoxil (DIX), cefetamet (CAT), cefetamet pivoxil (CPI), cefixime (CFM), cefmenoxime (CMX), cefodizime (DIZ), cefoperazone (CFP), cefoperazone/sulbactam (CSL), cefotaxime (CTX), cefotaxime/clavulanic acid (CTC), cefotaxime/sulbactam (CTS), cefotiam hexetil (CHE), cefovecin (FOV), cefpimizole (CFZ), cefpiramide (CPM), cefpodoxime (CPD), cefpodoxime proxetil (CPX), cefpodoxime/clavulanic acid (CDC), cefsulodin (CFS), ceftazidime (CAZ), ceftazidime/avibactam (CZA), ceftazidime/clavulanic acid (CCV), cefteram (CEM), cefteram pivoxil (CPL), ceftibuten (CTB), ceftiofur (TIO), ceftizoxime (CZX), ceftizoxime alapivoxil (CZP), ceftriaxone (CRO) and latamoxef (LTM)
\item \code{\link[=cephalosporins_4th]{cephalosporins_4th()}} can select: \cr cefepime (FEP), cefepime/clavulanic acid (CPC), cefepime/tazobactam (FPT), cefetecol (Cefcatacol) (CCL), cefoselis (CSE), cefozopran (ZOP), cefpirome (CPO) and cefquinome (CEQ)
\item \code{\link[=cephalosporins_4th]{cephalosporins_4th()}} can select: \cr cefepime (FEP), cefepime/clavulanic acid (CPC), cefepime/tazobactam (FPT), cefetecol (CCL), cefoselis (CSE), cefozopran (ZOP), cefpirome (CPO) and cefquinome (CEQ)
\item \code{\link[=cephalosporins_5th]{cephalosporins_5th()}} can select: \cr ceftaroline (CPT), ceftaroline/avibactam (CPA), ceftobiprole (BPR), ceftobiprole medocaril (CFM1), ceftolozane/enzyme inhibitor (CEI) and ceftolozane/tazobactam (CZT)
\item \code{\link[=fluoroquinolones]{fluoroquinolones()}} can select: \cr besifloxacin (BES), ciprofloxacin (CIP), clinafloxacin (CLX), danofloxacin (DAN), delafloxacin (DFX), difloxacin (DIF), enoxacin (ENX), enrofloxacin (ENR), finafloxacin (FIN), fleroxacin (FLE), garenoxacin (GRN), gatifloxacin (GAT), gemifloxacin (GEM), grepafloxacin (GRX), levofloxacin (LVX), levonadifloxacin (LND), lomefloxacin (LOM), marbofloxacin (MAR), metioxate (MXT), miloxacin (MIL), moxifloxacin (MFX), nadifloxacin (NAD), nifuroquine (NIF), norfloxacin (NOR), ofloxacin (OFX), orbifloxacin (ORB), pazufloxacin (PAZ), pefloxacin (PEF), pradofloxacin (PRA), premafloxacin (PRX), prulifloxacin (PRU), rufloxacin (RFL), sarafloxacin (SAR), sitafloxacin (SIT), sparfloxacin (SPX), temafloxacin (TMX), tilbroquinol (TBQ), tioxacin (TXC), tosufloxacin (TFX) and trovafloxacin (TVA)
\item \code{\link[=glycopeptides]{glycopeptides()}} can select: \cr avoparcin (AVO), dalbavancin (DAL), norvancomycin (NVA), oritavancin (ORI), ramoplanin (RAM), teicoplanin (TEC), teicoplanin-macromethod (TCM), telavancin (TLV), vancomycin (VAN) and vancomycin-macromethod (VAM)
\item \code{\link[=lincosamides]{lincosamides()}} can select: \cr acetylmidecamycin (ACM), acetylspiramycin (ASP), clindamycin (CLI), gamithromycin (GAM), kitasamycin (Leucomycin) (KIT), lincomycin (LIN), meleumycin (MEL), nafithromycin (ZWK), pirlimycin (PRL), primycin (PRM), solithromycin (SOL), tildipirosin (TIP), tilmicosin (TIL), tulathromycin (TUL), tylosin (TYL) and tylvalosin (TYL1)
\item \code{\link[=lincosamides]{lincosamides()}} can select: \cr acetylmidecamycin (ACM), acetylspiramycin (ASP), clindamycin (CLI), gamithromycin (GAM), kitasamycin (KIT), lincomycin (LIN), meleumycin (MEL), nafithromycin (ZWK), pirlimycin (PRL), primycin (PRM), solithromycin (SOL), tildipirosin (TIP), tilmicosin (TIL), tulathromycin (TUL), tylosin (TYL) and tylvalosin (TYL1)
\item \code{\link[=lipoglycopeptides]{lipoglycopeptides()}} can select: \cr dalbavancin (DAL), oritavancin (ORI) and telavancin (TLV)
\item \code{\link[=macrolides]{macrolides()}} can select: \cr acetylmidecamycin (ACM), acetylspiramycin (ASP), azithromycin (AZM), clarithromycin (CLR), dirithromycin (DIR), erythromycin (ERY), flurithromycin (FLR1), gamithromycin (GAM), josamycin (JOS), kitasamycin (Leucomycin) (KIT), meleumycin (MEL), midecamycin (MID), miocamycin (MCM), nafithromycin (ZWK), oleandomycin (OLE), pirlimycin (PRL), primycin (PRM), rokitamycin (ROK), roxithromycin (RXT), solithromycin (SOL), spiramycin (SPI), telithromycin (TLT), tildipirosin (TIP), tilmicosin (TIL), troleandomycin (TRL), tulathromycin (TUL), tylosin (TYL) and tylvalosin (TYL1)
\item \code{\link[=macrolides]{macrolides()}} can select: \cr acetylmidecamycin (ACM), acetylspiramycin (ASP), azithromycin (AZM), clarithromycin (CLR), dirithromycin (DIR), erythromycin (ERY), flurithromycin (FLR1), gamithromycin (GAM), josamycin (JOS), kitasamycin (KIT), meleumycin (MEL), midecamycin (MID), miocamycin (MCM), nafithromycin (ZWK), oleandomycin (OLE), pirlimycin (PRL), primycin (PRM), rokitamycin (ROK), roxithromycin (RXT), solithromycin (SOL), spiramycin (SPI), telithromycin (TLT), tildipirosin (TIP), tilmicosin (TIL), troleandomycin (TRL), tulathromycin (TUL), tylosin (TYL) and tylvalosin (TYL1)
\item \code{\link[=oxazolidinones]{oxazolidinones()}} can select: \cr cadazolid (CDZ), cycloserine (CYC), linezolid (LNZ), tedizolid (TZD) and thiacetazone (THA)
\item \code{\link[=penicillins]{penicillins()}} can select: \cr amoxicillin (AMX), amoxicillin/clavulanic acid (AMC), amoxicillin/sulbactam (AXS), ampicillin (AMP), ampicillin/sulbactam (SAM), apalcillin (APL), aspoxicillin (APX), avibactam (AVB), azidocillin (AZD), azlocillin (AZL), aztreonam (ATM), aztreonam/avibactam (AZA), bacampicillin (BAM), benzathine benzylpenicillin (BNB), benzathine phenoxymethylpenicillin (BNP), benzylpenicillin (PEN), carbenicillin (CRB), carindacillin (CRN), ciclacillin (CIC), clometocillin (CLM), cloxacillin (CLO), dicloxacillin (DIC), epicillin (EPC), flucloxacillin (FLC), hetacillin (HET), lenampicillin (LEN), mecillinam (Amdinocillin) (MEC), metampicillin (MTM), methicillin (MET), mezlocillin (MEZ), mezlocillin/sulbactam (MSU), nacubactam (NAC), nafcillin (NAF), oxacillin (OXA), penamecillin (PNM), penicillin/novobiocin (PNO), penicillin/sulbactam (PSU), phenethicillin (PHE), phenoxymethylpenicillin (PHN), piperacillin (PIP), piperacillin/sulbactam (PIS), piperacillin/tazobactam (TZP), piridicillin (PRC), pivampicillin (PVM), pivmecillinam (PME), procaine benzylpenicillin (PRB), propicillin (PRP), sarmoxicillin (SRX), sulbactam (SUL), sulbenicillin (SBC), sultamicillin (SLT6), talampicillin (TAL), tazobactam (TAZ), temocillin (TEM), ticarcillin (TIC) and ticarcillin/clavulanic acid (TCC)
\item \code{\link[=penicillins]{penicillins()}} can select: \cr amoxicillin (AMX), amoxicillin/clavulanic acid (AMC), amoxicillin/sulbactam (AXS), ampicillin (AMP), ampicillin/sulbactam (SAM), apalcillin (APL), aspoxicillin (APX), avibactam (AVB), azidocillin (AZD), azlocillin (AZL), aztreonam (ATM), aztreonam/avibactam (AZA), aztreonam/nacubactam (ANC), bacampicillin (BAM), benzathine benzylpenicillin (BNB), benzathine phenoxymethylpenicillin (BNP), benzylpenicillin (PEN), carbenicillin (CRB), carindacillin (CRN), cefepime/nacubactam (FNC), ciclacillin (CIC), clometocillin (CLM), cloxacillin (CLO), dicloxacillin (DIC), epicillin (EPC), flucloxacillin (FLC), hetacillin (HET), lenampicillin (LEN), mecillinam (MEC), metampicillin (MTM), methicillin (MET), mezlocillin (MEZ), mezlocillin/sulbactam (MSU), nacubactam (NAC), nafcillin (NAF), oxacillin (OXA), penamecillin (PNM), penicillin/novobiocin (PNO), penicillin/sulbactam (PSU), phenethicillin (PHE), phenoxymethylpenicillin (PHN), piperacillin (PIP), piperacillin/sulbactam (PIS), piperacillin/tazobactam (TZP), piridicillin (PRC), pivampicillin (PVM), pivmecillinam (PME), procaine benzylpenicillin (PRB), propicillin (PRP), sarmoxicillin (SRX), sulbactam (SUL), sulbenicillin (SBC), sultamicillin (SLT6), talampicillin (TAL), tazobactam (TAZ), temocillin (TEM), ticarcillin (TIC) and ticarcillin/clavulanic acid (TCC)
\item \code{\link[=polymyxins]{polymyxins()}} can select: \cr colistin (COL), polymyxin B (PLB) and polymyxin B/polysorbate 80 (POP)
\item \code{\link[=quinolones]{quinolones()}} can select: \cr besifloxacin (BES), cinoxacin (CIN), ciprofloxacin (CIP), clinafloxacin (CLX), danofloxacin (DAN), delafloxacin (DFX), difloxacin (DIF), enoxacin (ENX), enrofloxacin (ENR), finafloxacin (FIN), fleroxacin (FLE), flumequine (FLM), garenoxacin (GRN), gatifloxacin (GAT), gemifloxacin (GEM), grepafloxacin (GRX), levofloxacin (LVX), levonadifloxacin (LND), lomefloxacin (LOM), marbofloxacin (MAR), metioxate (MXT), miloxacin (MIL), moxifloxacin (MFX), nadifloxacin (NAD), nalidixic acid (NAL), nifuroquine (NIF), nitroxoline (NTR), norfloxacin (NOR), ofloxacin (OFX), orbifloxacin (ORB), oxolinic acid (OXO), pazufloxacin (PAZ), pefloxacin (PEF), pipemidic acid (PPA), piromidic acid (PIR), pradofloxacin (PRA), premafloxacin (PRX), prulifloxacin (PRU), rosoxacin (ROS), rufloxacin (RFL), sarafloxacin (SAR), sitafloxacin (SIT), sparfloxacin (SPX), temafloxacin (TMX), tilbroquinol (TBQ), tioxacin (TXC), tosufloxacin (TFX) and trovafloxacin (TVA)
\item \code{\link[=streptogramins]{streptogramins()}} can select: \cr pristinamycin (PRI) and quinupristin/dalfopristin (QDA)

4
man/antibiotics.Rd
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@ -4,9 +4,9 @@
\name{antibiotics}
\alias{antibiotics}
\alias{antivirals}
\title{Data Sets with 558 Antimicrobial Drugs}
\title{Data Sets with 566 Antimicrobial Drugs}
\format{
\subsection{For the \link{antibiotics} data set: a \link{data.frame} with 456 observations and 14 variables:}{
\subsection{For the \link{antibiotics} data set: a \link{data.frame} with 464 observations and 14 variables:}{
\itemize{
\item \code{ab}\cr Antibiotic ID as used in this package (such as \code{AMC}), using the official EARS-Net (European Antimicrobial Resistance Surveillance Network) codes where available
\item \code{cid}\cr Compound ID as found in PubChem

2
man/as.rsi.Rd
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@ -123,7 +123,7 @@ After using \code{\link[=as.rsi]{as.rsi()}}, you can use the \code{\link[=eucast
\subsection{Machine-Readable Interpretation Guidelines}{
The repository of this package \href{https://github.com/msberends/AMR/blob/main/data-raw/rsi_translation.txt}{contains a machine-readable version} of all guidelines. This is a CSV file consisting of 23,451 rows and 10 columns. This file is machine-readable, since it contains one row for every unique combination of the test method (MIC or disk diffusion), the antimicrobial agent and the microorganism. \strong{This allows for easy implementation of these rules in laboratory information systems (LIS)}. Note that it only contains interpretation guidelines for humans - interpretation guidelines from CLSI for animals were removed.
The repository of this package \href{https://github.com/msberends/AMR/blob/main/data-raw/rsi_translation.txt}{contains a machine-readable version} of all guidelines. This is a CSV file consisting of 20,318 rows and 11 columns. This file is machine-readable, since it contains one row for every unique combination of the test method (MIC or disk diffusion), the antimicrobial agent and the microorganism. \strong{This allows for easy implementation of these rules in laboratory information systems (LIS)}. Note that it only contains interpretation guidelines for humans - interpretation guidelines from CLSI for animals were removed.
}
\subsection{Other}{

18
man/custom_eucast_rules.Rd
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@ -70,25 +70,25 @@ It is possible to define antibiotic groups instead of single antibiotics for the
\itemize{
\item \code{aminoglycosides}\cr(amikacin, amikacin/fosfomycin, amphotericin B-high, apramycin, arbekacin, astromicin, bekanamycin, dibekacin, framycetin, gentamicin, gentamicin-high, habekacin, hygromycin, isepamicin, kanamycin, kanamycin-high, kanamycin/cephalexin, micronomicin, neomycin, netilmicin, pentisomicin, plazomicin, propikacin, ribostamycin, sisomicin, streptoduocin, streptomycin, streptomycin-high, tobramycin and tobramycin-high)
\item \code{aminopenicillins}\cr(amoxicillin and ampicillin)
\item \code{antifungals}\cr(5-fluorocytosine, amphotericin B, anidulafungin, butoconazole, caspofungin, ciclopirox, clotrimazole, econazole, fluconazole, fosfluconazole, griseofulvin, hachimycin, isavuconazole, isoconazole, itraconazole, ketoconazole, micafungin, miconazole, nystatin, pimaricin (Natamycin), posaconazole, ribociclib, sulconazole, terbinafine, terconazole and voriconazole)
\item \code{antimycobacterials}\cr(4-aminosalicylic acid, calcium aminosalicylate, capreomycin, clofazimine, delamanid, enviomycin (Tuberactinomycin), ethambutol, ethambutol/isoniazid, ethionamide, isoniazid, morinamide, p-aminosalicylic acid, pretomanid, prothionamide, pyrazinamide, rifabutin, rifampicin, rifampicin/isoniazid, rifampicin/pyrazinamide/ethambutol/isoniazid, rifampicin/pyrazinamide/isoniazid, rifamycin, rifapentine, simvastatin/fenofibrate, sodium aminosalicylate, streptomycin/isoniazid, terizidone, thioacetazone/isoniazid, tiocarlide and viomycin)
\item \code{betalactams}\cr(amoxicillin, amoxicillin/clavulanic acid, amoxicillin/sulbactam, ampicillin, ampicillin/sulbactam, apalcillin, aspoxicillin, avibactam, azidocillin, azlocillin, aztreonam, aztreonam/avibactam, bacampicillin, benzathine benzylpenicillin, benzathine phenoxymethylpenicillin, benzylpenicillin, biapenem, carbenicillin, carindacillin, cefacetrile, cefaclor, cefadroxil, cefaloridine, cefamandole, cefatrizine, cefazedone, cefazolin, cefcapene, cefcapene pivoxil, cefdinir, cefditoren, cefditoren pivoxil, cefepime, cefepime/clavulanic acid, cefepime/tazobactam, cefetamet, cefetamet pivoxil, cefetecol (Cefcatacol), cefetrizole, cefixime, cefmenoxime, cefmetazole, cefodizime, cefonicid, cefoperazone, cefoperazone/sulbactam, ceforanide, cefoselis, cefotaxime, cefotaxime/clavulanic acid, cefotaxime/sulbactam, cefotetan, cefotiam, cefotiam hexetil, cefovecin, cefoxitin, cefoxitin screening, cefozopran, cefpimizole, cefpiramide, cefpirome, cefpodoxime, cefpodoxime proxetil, cefpodoxime/clavulanic acid, cefprozil, cefquinome, cefroxadine, cefsulodin, cefsumide, ceftaroline, ceftaroline/avibactam, ceftazidime, ceftazidime/avibactam, ceftazidime/clavulanic acid, cefteram, cefteram pivoxil, ceftezole, ceftibuten, ceftiofur, ceftizoxime, ceftizoxime alapivoxil, ceftobiprole, ceftobiprole medocaril, ceftolozane/enzyme inhibitor, ceftolozane/tazobactam, ceftriaxone, cefuroxime, cefuroxime axetil, cephalexin, cephalothin, cephapirin, cephradine, ciclacillin, clometocillin, cloxacillin, dicloxacillin, doripenem, epicillin, ertapenem, flucloxacillin, hetacillin, imipenem, imipenem/EDTA, imipenem/relebactam, latamoxef, lenampicillin, loracarbef, mecillinam (Amdinocillin), meropenem, meropenem/nacubactam, meropenem/vaborbactam, metampicillin, methicillin, mezlocillin, mezlocillin/sulbactam, nacubactam, nafcillin, oxacillin, panipenem, penamecillin, penicillin/novobiocin, penicillin/sulbactam, phenethicillin, phenoxymethylpenicillin, piperacillin, piperacillin/sulbactam, piperacillin/tazobactam, piridicillin, pivampicillin, pivmecillinam, procaine benzylpenicillin, propicillin, razupenem, ritipenem, ritipenem acoxil, sarmoxicillin, sulbactam, sulbenicillin, sultamicillin, talampicillin, tazobactam, tebipenem, temocillin, ticarcillin and ticarcillin/clavulanic acid)
\item \code{antifungals}\cr(5-fluorocytosine, amphotericin B, anidulafungin, butoconazole, caspofungin, ciclopirox, clotrimazole, econazole, fluconazole, fosfluconazole, griseofulvin, hachimycin, ibrexafungerp, isavuconazole, isoconazole, itraconazole, ketoconazole, manogepix, micafungin, miconazole, nystatin, pimaricin, posaconazole, rezafungin, ribociclib, sulconazole, terbinafine, terconazole and voriconazole)
\item \code{antimycobacterials}\cr(4-aminosalicylic acid, calcium aminosalicylate, capreomycin, clofazimine, delamanid, enviomycin, ethambutol, ethambutol/isoniazid, ethionamide, isoniazid, morinamide, p-aminosalicylic acid, pretomanid, prothionamide, pyrazinamide, rifabutin, rifampicin, rifampicin/isoniazid, rifampicin/pyrazinamide/ethambutol/isoniazid, rifampicin/pyrazinamide/isoniazid, rifamycin, rifapentine, simvastatin/fenofibrate, sodium aminosalicylate, streptomycin/isoniazid, terizidone, thioacetazone/isoniazid, tiocarlide and viomycin)
\item \code{betalactams}\cr(amoxicillin, amoxicillin/clavulanic acid, amoxicillin/sulbactam, ampicillin, ampicillin/sulbactam, apalcillin, aspoxicillin, avibactam, azidocillin, azlocillin, aztreonam, aztreonam/avibactam, aztreonam/nacubactam, bacampicillin, benzathine benzylpenicillin, benzathine phenoxymethylpenicillin, benzylpenicillin, biapenem, carbenicillin, carindacillin, cefacetrile, cefaclor, cefadroxil, cefaloridine, cefamandole, cefatrizine, cefazedone, cefazolin, cefcapene, cefcapene pivoxil, cefdinir, cefditoren, cefditoren pivoxil, cefepime, cefepime/clavulanic acid, cefepime/nacubactam, cefepime/tazobactam, cefetamet, cefetamet pivoxil, cefetecol, cefetrizole, cefixime, cefmenoxime, cefmetazole, cefodizime, cefonicid, cefoperazone, cefoperazone/sulbactam, ceforanide, cefoselis, cefotaxime, cefotaxime/clavulanic acid, cefotaxime/sulbactam, cefotetan, cefotiam, cefotiam hexetil, cefovecin, cefoxitin, cefoxitin screening, cefozopran, cefpimizole, cefpiramide, cefpirome, cefpodoxime, cefpodoxime proxetil, cefpodoxime/clavulanic acid, cefprozil, cefquinome, cefroxadine, cefsulodin, cefsumide, ceftaroline, ceftaroline/avibactam, ceftazidime, ceftazidime/avibactam, ceftazidime/clavulanic acid, cefteram, cefteram pivoxil, ceftezole, ceftibuten, ceftiofur, ceftizoxime, ceftizoxime alapivoxil, ceftobiprole, ceftobiprole medocaril, ceftolozane/enzyme inhibitor, ceftolozane/tazobactam, ceftriaxone, cefuroxime, cefuroxime axetil, cephalexin, cephalothin, cephapirin, cephradine, ciclacillin, clometocillin, cloxacillin, dicloxacillin, doripenem, epicillin, ertapenem, flucloxacillin, hetacillin, imipenem, imipenem/EDTA, imipenem/relebactam, latamoxef, lenampicillin, loracarbef, mecillinam, meropenem, meropenem/nacubactam, meropenem/vaborbactam, metampicillin, methicillin, mezlocillin, mezlocillin/sulbactam, nacubactam, nafcillin, oxacillin, panipenem, penamecillin, penicillin/novobiocin, penicillin/sulbactam, phenethicillin, phenoxymethylpenicillin, piperacillin, piperacillin/sulbactam, piperacillin/tazobactam, piridicillin, pivampicillin, pivmecillinam, procaine benzylpenicillin, propicillin, razupenem, ritipenem, ritipenem acoxil, sarmoxicillin, sulbactam, sulbenicillin, sultamicillin, talampicillin, tazobactam, tebipenem, temocillin, ticarcillin and ticarcillin/clavulanic acid)
\item \code{carbapenems}\cr(biapenem, doripenem, ertapenem, imipenem, imipenem/EDTA, imipenem/relebactam, meropenem, meropenem/nacubactam, meropenem/vaborbactam, panipenem, razupenem, ritipenem, ritipenem acoxil and tebipenem)
\item \code{cephalosporins}\cr(cefacetrile, cefaclor, cefadroxil, cefaloridine, cefamandole, cefatrizine, cefazedone, cefazolin, cefcapene, cefcapene pivoxil, cefdinir, cefditoren, cefditoren pivoxil, cefepime, cefepime/clavulanic acid, cefepime/tazobactam, cefetamet, cefetamet pivoxil, cefetecol (Cefcatacol), cefetrizole, cefixime, cefmenoxime, cefmetazole, cefodizime, cefonicid, cefoperazone, cefoperazone/sulbactam, ceforanide, cefoselis, cefotaxime, cefotaxime/clavulanic acid, cefotaxime/sulbactam, cefotetan, cefotiam, cefotiam hexetil, cefovecin, cefoxitin, cefoxitin screening, cefozopran, cefpimizole, cefpiramide, cefpirome, cefpodoxime, cefpodoxime proxetil, cefpodoxime/clavulanic acid, cefprozil, cefquinome, cefroxadine, cefsulodin, cefsumide, ceftaroline, ceftaroline/avibactam, ceftazidime, ceftazidime/avibactam, ceftazidime/clavulanic acid, cefteram, cefteram pivoxil, ceftezole, ceftibuten, ceftiofur, ceftizoxime, ceftizoxime alapivoxil, ceftobiprole, ceftobiprole medocaril, ceftolozane/enzyme inhibitor, ceftolozane/tazobactam, ceftriaxone, cefuroxime, cefuroxime axetil, cephalexin, cephalothin, cephapirin, cephradine, latamoxef and loracarbef)
\item \code{cephalosporins}\cr(cefacetrile, cefaclor, cefadroxil, cefaloridine, cefamandole, cefatrizine, cefazedone, cefazolin, cefcapene, cefcapene pivoxil, cefdinir, cefditoren, cefditoren pivoxil, cefepime, cefepime/clavulanic acid, cefepime/tazobactam, cefetamet, cefetamet pivoxil, cefetecol, cefetrizole, cefixime, cefmenoxime, cefmetazole, cefodizime, cefonicid, cefoperazone, cefoperazone/sulbactam, ceforanide, cefoselis, cefotaxime, cefotaxime/clavulanic acid, cefotaxime/sulbactam, cefotetan, cefotiam, cefotiam hexetil, cefovecin, cefoxitin, cefoxitin screening, cefozopran, cefpimizole, cefpiramide, cefpirome, cefpodoxime, cefpodoxime proxetil, cefpodoxime/clavulanic acid, cefprozil, cefquinome, cefroxadine, cefsulodin, cefsumide, ceftaroline, ceftaroline/avibactam, ceftazidime, ceftazidime/avibactam, ceftazidime/clavulanic acid, cefteram, cefteram pivoxil, ceftezole, ceftibuten, ceftiofur, ceftizoxime, ceftizoxime alapivoxil, ceftobiprole, ceftobiprole medocaril, ceftolozane/enzyme inhibitor, ceftolozane/tazobactam, ceftriaxone, cefuroxime, cefuroxime axetil, cephalexin, cephalothin, cephapirin, cephradine, latamoxef and loracarbef)
\item \code{cephalosporins_1st}\cr(cefacetrile, cefadroxil, cefaloridine, cefatrizine, cefazedone, cefazolin, cefroxadine, ceftezole, cephalexin, cephalothin, cephapirin and cephradine)
\item \code{cephalosporins_2nd}\cr(cefaclor, cefamandole, cefmetazole, cefonicid, ceforanide, cefotetan, cefotiam, cefoxitin, cefoxitin screening, cefprozil, cefuroxime, cefuroxime axetil and loracarbef)
\item \code{cephalosporins_3rd}\cr(cefcapene, cefcapene pivoxil, cefdinir, cefditoren, cefditoren pivoxil, cefetamet, cefetamet pivoxil, cefixime, cefmenoxime, cefodizime, cefoperazone, cefoperazone/sulbactam, cefotaxime, cefotaxime/clavulanic acid, cefotaxime/sulbactam, cefotiam hexetil, cefovecin, cefpimizole, cefpiramide, cefpodoxime, cefpodoxime proxetil, cefpodoxime/clavulanic acid, cefsulodin, ceftazidime, ceftazidime/avibactam, ceftazidime/clavulanic acid, cefteram, cefteram pivoxil, ceftibuten, ceftiofur, ceftizoxime, ceftizoxime alapivoxil, ceftriaxone and latamoxef)
\item \code{cephalosporins_4th}\cr(cefepime, cefepime/clavulanic acid, cefepime/tazobactam, cefetecol (Cefcatacol), cefoselis, cefozopran, cefpirome and cefquinome)
\item \code{cephalosporins_4th}\cr(cefepime, cefepime/clavulanic acid, cefepime/tazobactam, cefetecol, cefoselis, cefozopran, cefpirome and cefquinome)
\item \code{cephalosporins_5th}\cr(ceftaroline, ceftaroline/avibactam, ceftobiprole, ceftobiprole medocaril, ceftolozane/enzyme inhibitor and ceftolozane/tazobactam)
\item \code{cephalosporins_except_caz}\cr(cefacetrile, cefaclor, cefadroxil, cefaloridine, cefamandole, cefatrizine, cefazedone, cefazolin, cefcapene, cefcapene pivoxil, cefdinir, cefditoren, cefditoren pivoxil, cefepime, cefepime/clavulanic acid, cefepime/tazobactam, cefetamet, cefetamet pivoxil, cefetecol (Cefcatacol), cefetrizole, cefixime, cefmenoxime, cefmetazole, cefodizime, cefonicid, cefoperazone, cefoperazone/sulbactam, ceforanide, cefoselis, cefotaxime, cefotaxime/clavulanic acid, cefotaxime/sulbactam, cefotetan, cefotiam, cefotiam hexetil, cefovecin, cefoxitin, cefoxitin screening, cefozopran, cefpimizole, cefpiramide, cefpirome, cefpodoxime, cefpodoxime proxetil, cefpodoxime/clavulanic acid, cefprozil, cefquinome, cefroxadine, cefsulodin, cefsumide, ceftaroline, ceftaroline/avibactam, ceftazidime/avibactam, ceftazidime/clavulanic acid, cefteram, cefteram pivoxil, ceftezole, ceftibuten, ceftiofur, ceftizoxime, ceftizoxime alapivoxil, ceftobiprole, ceftobiprole medocaril, ceftolozane/enzyme inhibitor, ceftolozane/tazobactam, ceftriaxone, cefuroxime, cefuroxime axetil, cephalexin, cephalothin, cephapirin, cephradine, latamoxef and loracarbef)
\item \code{cephalosporins_except_caz}\cr(cefacetrile, cefaclor, cefadroxil, cefaloridine, cefamandole, cefatrizine, cefazedone, cefazolin, cefcapene, cefcapene pivoxil, cefdinir, cefditoren, cefditoren pivoxil, cefepime, cefepime/clavulanic acid, cefepime/tazobactam, cefetamet, cefetamet pivoxil, cefetecol, cefetrizole, cefixime, cefmenoxime, cefmetazole, cefodizime, cefonicid, cefoperazone, cefoperazone/sulbactam, ceforanide, cefoselis, cefotaxime, cefotaxime/clavulanic acid, cefotaxime/sulbactam, cefotetan, cefotiam, cefotiam hexetil, cefovecin, cefoxitin, cefoxitin screening, cefozopran, cefpimizole, cefpiramide, cefpirome, cefpodoxime, cefpodoxime proxetil, cefpodoxime/clavulanic acid, cefprozil, cefquinome, cefroxadine, cefsulodin, cefsumide, ceftaroline, ceftaroline/avibactam, ceftazidime/avibactam, ceftazidime/clavulanic acid, cefteram, cefteram pivoxil, ceftezole, ceftibuten, ceftiofur, ceftizoxime, ceftizoxime alapivoxil, ceftobiprole, ceftobiprole medocaril, ceftolozane/enzyme inhibitor, ceftolozane/tazobactam, ceftriaxone, cefuroxime, cefuroxime axetil, cephalexin, cephalothin, cephapirin, cephradine, latamoxef and loracarbef)
\item \code{fluoroquinolones}\cr(besifloxacin, ciprofloxacin, clinafloxacin, danofloxacin, delafloxacin, difloxacin, enoxacin, enrofloxacin, finafloxacin, fleroxacin, garenoxacin, gatifloxacin, gemifloxacin, grepafloxacin, levofloxacin, levonadifloxacin, lomefloxacin, marbofloxacin, metioxate, miloxacin, moxifloxacin, nadifloxacin, nifuroquine, norfloxacin, ofloxacin, orbifloxacin, pazufloxacin, pefloxacin, pradofloxacin, premafloxacin, prulifloxacin, rufloxacin, sarafloxacin, sitafloxacin, sparfloxacin, temafloxacin, tilbroquinol, tioxacin, tosufloxacin and trovafloxacin)
\item \code{glycopeptides}\cr(avoparcin, dalbavancin, norvancomycin, oritavancin, ramoplanin, teicoplanin, teicoplanin-macromethod, telavancin, vancomycin and vancomycin-macromethod)
\item \code{glycopeptides_except_lipo}\cr(avoparcin, norvancomycin, ramoplanin, teicoplanin, teicoplanin-macromethod, vancomycin and vancomycin-macromethod)
\item \code{lincosamides}\cr(acetylmidecamycin, acetylspiramycin, clindamycin, gamithromycin, kitasamycin (Leucomycin), lincomycin, meleumycin, nafithromycin, pirlimycin, primycin, solithromycin, tildipirosin, tilmicosin, tulathromycin, tylosin and tylvalosin)
\item \code{lincosamides}\cr(acetylmidecamycin, acetylspiramycin, clindamycin, gamithromycin, kitasamycin, lincomycin, meleumycin, nafithromycin, pirlimycin, primycin, solithromycin, tildipirosin, tilmicosin, tulathromycin, tylosin and tylvalosin)
\item \code{lipoglycopeptides}\cr(dalbavancin, oritavancin and telavancin)
\item \code{macrolides}\cr(acetylmidecamycin, acetylspiramycin, azithromycin, clarithromycin, dirithromycin, erythromycin, flurithromycin, gamithromycin, josamycin, kitasamycin (Leucomycin), meleumycin, midecamycin, miocamycin, nafithromycin, oleandomycin, pirlimycin, primycin, rokitamycin, roxithromycin, solithromycin, spiramycin, telithromycin, tildipirosin, tilmicosin, troleandomycin, tulathromycin, tylosin and tylvalosin)
\item \code{macrolides}\cr(acetylmidecamycin, acetylspiramycin, azithromycin, clarithromycin, dirithromycin, erythromycin, flurithromycin, gamithromycin, josamycin, kitasamycin, meleumycin, midecamycin, miocamycin, nafithromycin, oleandomycin, pirlimycin, primycin, rokitamycin, roxithromycin, solithromycin, spiramycin, telithromycin, tildipirosin, tilmicosin, troleandomycin, tulathromycin, tylosin and tylvalosin)
\item \code{oxazolidinones}\cr(cadazolid, cycloserine, linezolid, tedizolid and thiacetazone)
\item \code{penicillins}\cr(amoxicillin, amoxicillin/clavulanic acid, amoxicillin/sulbactam, ampicillin, ampicillin/sulbactam, apalcillin, aspoxicillin, avibactam, azidocillin, azlocillin, aztreonam, aztreonam/avibactam, bacampicillin, benzathine benzylpenicillin, benzathine phenoxymethylpenicillin, benzylpenicillin, carbenicillin, carindacillin, ciclacillin, clometocillin, cloxacillin, dicloxacillin, epicillin, flucloxacillin, hetacillin, lenampicillin, mecillinam (Amdinocillin), metampicillin, methicillin, mezlocillin, mezlocillin/sulbactam, nacubactam, nafcillin, oxacillin, penamecillin, penicillin/novobiocin, penicillin/sulbactam, phenethicillin, phenoxymethylpenicillin, piperacillin, piperacillin/sulbactam, piperacillin/tazobactam, piridicillin, pivampicillin, pivmecillinam, procaine benzylpenicillin, propicillin, sarmoxicillin, sulbactam, sulbenicillin, sultamicillin, talampicillin, tazobactam, temocillin, ticarcillin and ticarcillin/clavulanic acid)
\item \code{penicillins}\cr(amoxicillin, amoxicillin/clavulanic acid, amoxicillin/sulbactam, ampicillin, ampicillin/sulbactam, apalcillin, aspoxicillin, avibactam, azidocillin, azlocillin, aztreonam, aztreonam/avibactam, aztreonam/nacubactam, bacampicillin, benzathine benzylpenicillin, benzathine phenoxymethylpenicillin, benzylpenicillin, carbenicillin, carindacillin, cefepime/nacubactam, ciclacillin, clometocillin, cloxacillin, dicloxacillin, epicillin, flucloxacillin, hetacillin, lenampicillin, mecillinam, metampicillin, methicillin, mezlocillin, mezlocillin/sulbactam, nacubactam, nafcillin, oxacillin, penamecillin, penicillin/novobiocin, penicillin/sulbactam, phenethicillin, phenoxymethylpenicillin, piperacillin, piperacillin/sulbactam, piperacillin/tazobactam, piridicillin, pivampicillin, pivmecillinam, procaine benzylpenicillin, propicillin, sarmoxicillin, sulbactam, sulbenicillin, sultamicillin, talampicillin, tazobactam, temocillin, ticarcillin and ticarcillin/clavulanic acid)
\item \code{polymyxins}\cr(colistin, polymyxin B and polymyxin B/polysorbate 80)
\item \code{quinolones}\cr(besifloxacin, cinoxacin, ciprofloxacin, clinafloxacin, danofloxacin, delafloxacin, difloxacin, enoxacin, enrofloxacin, finafloxacin, fleroxacin, flumequine, garenoxacin, gatifloxacin, gemifloxacin, grepafloxacin, levofloxacin, levonadifloxacin, lomefloxacin, marbofloxacin, metioxate, miloxacin, moxifloxacin, nadifloxacin, nalidixic acid, nifuroquine, nitroxoline, norfloxacin, ofloxacin, orbifloxacin, oxolinic acid, pazufloxacin, pefloxacin, pipemidic acid, piromidic acid, pradofloxacin, premafloxacin, prulifloxacin, rosoxacin, rufloxacin, sarafloxacin, sitafloxacin, sparfloxacin, temafloxacin, tilbroquinol, tioxacin, tosufloxacin and trovafloxacin)
\item \code{streptogramins}\cr(pristinamycin and quinupristin/dalfopristin)

2
man/eucast_rules.Rd
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man/mdro.Rd
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5
man/rsi_translation.Rd
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@ -5,12 +5,13 @@
\alias{rsi_translation}
\title{Data Set for R/SI Interpretation}
\format{
A \link{data.frame} with 23,451 observations and 10 variables:
A \link{data.frame} with 20,318 observations and 11 variables:
\itemize{
\item \code{guideline}\cr Name of the guideline
\item \code{method}\cr Either "DISK" or "MIC"
\item \code{site}\cr Body site, e.g. "Oral" or "Respiratory"
\item \code{mo}\cr Microbial ID, see \code{\link[=as.mo]{as.mo()}}
\item \code{rank_index}\cr Taxonomic rank index of \code{mo} from 1 (subspecies/infraspecies) to 5 (unknown microorganism)
\item \code{ab}\cr Antibiotic ID, see \code{\link[=as.ab]{as.ab()}}
\item \code{ref_tbl}\cr Info about where the guideline rule can be found
\item \code{disk_dose}\cr Dose of the used disk diffusion method
@ -26,7 +27,7 @@ rsi_translation
Data set containing reference data to interpret MIC and disk diffusion to R/SI values, according to international guidelines. Currently implemented guidelines are EUCAST (2011-2021) and CLSI (2010-2021). Use \code{\link[=as.rsi]{as.rsi()}} to transform MICs or disks measurements to R/SI values.
}
\details{
The repository of this \code{AMR} package contains a file comprising this exact data set: \url{https://github.com/msberends/AMR/blob/main/data-raw/rsi_translation.txt}. This file \strong{allows for machine reading EUCAST and CLSI guidelines}, which is almost impossible with the Excel and PDF files distributed by EUCAST and CLSI. The file is updated automatically.
The repository of this \code{AMR} package contains a file comprising this exact data set: \url{https://github.com/msberends/AMR/blob/main/data-raw/rsi_translation.txt}. This file \strong{allows for machine reading EUCAST and CLSI guidelines}, which is almost impossible with the Excel and PDF files distributed by EUCAST and CLSI. The file is updated automatically and the \code{mo} and \code{ab} columns have been transformed to contain the full official names instead of codes.
}
\section{Reference Data Publicly Available}{

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vignettes/benchmarks.Rmd
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@ -79,10 +79,11 @@ S.aureus <- microbenchmark(
print(S.aureus, unit = "ms", signif = 2)
```
```{r, echo = FALSE}
mult_factor <- median(S.aureus[S.aureus$expr == S.aureus[which(S.aureus$time == max(S.aureus$time)), "expr"], "time"]) / median(S.aureus[S.aureus$expr == S.aureus[which(S.aureus$time == min(S.aureus$time)), "expr"], "time"])
ggplot.bm(S.aureus)
```
In the table above, all measurements are shown in milliseconds (thousands of seconds). A value of 5 milliseconds means it can determine 200 input values per second. It case of 200 milliseconds, this is only 5 input values per second. It is clear that accepted taxonomic names are extremely fast, but some variations are up to 200 times slower to determine.
In the table above, all measurements are shown in milliseconds (thousands of seconds). A value of 5 milliseconds means it can determine 200 input values per second. It case of 200 milliseconds, this is only 5 input values per second. It is clear that accepted taxonomic names are extremely fast, but some variations are up to `r ceiling(mult_factor)` times slower to determine.
To improve performance, we implemented two important algorithms to save unnecessary calculations: **repetitive results** and **already precalculated results**.
@ -150,24 +151,30 @@ Of course, when running `mo_phylum("Firmicutes")` the function has zero knowledg
### Results in other languages
When the system language is non-English and supported by this `AMR` package, some functions will have a translated result. This almost does't take extra time:
When the system language is non-English and supported by this `AMR` package, some functions will have a translated result. This almost does't take extra time (compare "en" from the table below with the other languages):
```{r}
mo_name("CoNS", language = "en") # or just mo_name("CoNS") on an English system
CoNS <- as.mo("CoNS")
CoNS
mo_name("CoNS", language = "es") # or just mo_name("CoNS") on a Spanish system
mo_name(CoNS, language = "en") # or just mo_name(CoNS) on an English system
mo_name("CoNS", language = "nl") # or just mo_name("CoNS") on a Dutch system
mo_name(CoNS, language = "es") # or just mo_name(CoNS) on a Spanish system
run_it <- microbenchmark(en = mo_name("CoNS", language = "en"),
de = mo_name("CoNS", language = "de"),
nl = mo_name("CoNS", language = "nl"),
es = mo_name("CoNS", language = "es"),
it = mo_name("CoNS", language = "it"),
fr = mo_name("CoNS", language = "fr"),
pt = mo_name("CoNS", language = "pt"),
mo_name(CoNS, language = "nl") # or just mo_name(CoNS) on a Dutch system
run_it <- microbenchmark(da = mo_name(CoNS, language = "da"),
de = mo_name(CoNS, language = "de"),
en = mo_name(CoNS, language = "en"),
es = mo_name(CoNS, language = "es"),
fr = mo_name(CoNS, language = "fr"),
it = mo_name(CoNS, language = "it"),
nl = mo_name(CoNS, language = "nl"),
pt = mo_name(CoNS, language = "pt"),
ru = mo_name(CoNS, language = "ru"),
sv = mo_name(CoNS, language = "sv"),
times = 100)
print(run_it, unit = "ms", signif = 4)
```
Currently supported non-English languages are German, Dutch, Spanish, Italian, French and Portuguese.
Currently supported languages are `r AMR:::vector_and(names(AMR:::LANGUAGES_SUPPORTED))`.