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Code Releases Activity

Fixes for Salmonella

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This commit is contained in:
dr. M.S. (Matthijs) Berends
2022-12-17 14:31:33 +01:00
parent 5f3a7694aa
commit 23fe427cbc
42 changed files with 375 additions and 445 deletions
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2
data-raw/_pre_commit_hook.R
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@@ -155,6 +155,8 @@ create_MO_fullname_lower <- function() {
ind <- AMR_env$MO_lookup$genus == "" | grepl("^[(]unknown ", AMR_env$MO_lookup$fullname, perl = TRUE)
AMR_env$MO_lookup[ind, "fullname_lower"] <- tolower(AMR_env$MO_lookup[ind, "fullname", drop = TRUE])
AMR_env$MO_lookup$fullname_lower <- trimws(gsub("[^.a-z0-9/ \\-]+", "", AMR_env$MO_lookup$fullname_lower, perl = TRUE))
# special for Salmonella - they have cities as subspecies but not the species (enterica) in the fullname:
AMR_env$MO_lookup$fullname_lower[which(AMR_env$MO_lookup$subspecies %like_case% "^[A-Z]")] <- gsub(" enterica ", " ", AMR_env$MO_lookup$fullname_lower[which(AMR_env$MO_lookup$subspecies %like_case% "^[A-Z]")], fixed = TRUE)
AMR_env$MO_lookup$fullname_lower
}
MO_CONS <- create_species_cons_cops("CoNS")

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data-raw/bartlett_et_al_2022_human_pathogens.xlsx Normal file
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data-raw/intrinsicR.md5
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data-raw/intrinsic_resistant.txt
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@@ -121559,262 +121559,262 @@
"Streptococcus gordonii" "Streptomycin"
"Streptococcus gordonii" "Temocillin"
"Streptococcus gordonii" "Tobramycin"
"Streptococcus group A" "Amikacin/fosfomycin"
"Streptococcus group A" "Amikacin"
"Streptococcus group A" "Apramycin"
"Streptococcus group A" "Arbekacin"
"Streptococcus group A" "Astromicin"
"Streptococcus group A" "Aztreonam"
"Streptococcus group A" "Bekanamycin"
"Streptococcus group A" "Ceftazidime"
"Streptococcus group A" "Colistin"
"Streptococcus group A" "Dibekacin"
"Streptococcus group A" "Framycetin"
"Streptococcus group A" "Fusidic acid"
"Streptococcus group A" "Gentamicin"
"Streptococcus group A" "Habekacin"
"Streptococcus group A" "Hygromycin"
"Streptococcus group A" "Isepamicin"
"Streptococcus group A" "Kanamycin/cephalexin"
"Streptococcus group A" "Kanamycin"
"Streptococcus group A" "Micronomicin"
"Streptococcus group A" "Nalidixic acid"
"Streptococcus group A" "Neomycin"
"Streptococcus group A" "Netilmicin"
"Streptococcus group A" "Pentisomicin"
"Streptococcus group A" "Propikacin"
"Streptococcus group A" "Polymyxin B"
"Streptococcus group A" "Plazomicin"
"Streptococcus group A" "Ribostamycin"
"Streptococcus group A" "Sisomicin"
"Streptococcus group A" "Streptoduocin"
"Streptococcus group A" "Streptomycin"
"Streptococcus group A" "Temocillin"
"Streptococcus group A" "Tobramycin"
"Streptococcus group B" "Amikacin/fosfomycin"
"Streptococcus group B" "Amikacin"
"Streptococcus group B" "Apramycin"
"Streptococcus group B" "Arbekacin"
"Streptococcus group B" "Astromicin"
"Streptococcus group B" "Aztreonam"
"Streptococcus group B" "Bekanamycin"
"Streptococcus group B" "Ceftazidime"
"Streptococcus group B" "Colistin"
"Streptococcus group B" "Dibekacin"
"Streptococcus group B" "Framycetin"
"Streptococcus group B" "Fusidic acid"
"Streptococcus group B" "Gentamicin"
"Streptococcus group B" "Habekacin"
"Streptococcus group B" "Hygromycin"
"Streptococcus group B" "Isepamicin"
"Streptococcus group B" "Kanamycin/cephalexin"
"Streptococcus group B" "Kanamycin"
"Streptococcus group B" "Micronomicin"
"Streptococcus group B" "Nalidixic acid"
"Streptococcus group B" "Neomycin"
"Streptococcus group B" "Netilmicin"
"Streptococcus group B" "Pentisomicin"
"Streptococcus group B" "Propikacin"
"Streptococcus group B" "Polymyxin B"
"Streptococcus group B" "Plazomicin"
"Streptococcus group B" "Ribostamycin"
"Streptococcus group B" "Sisomicin"
"Streptococcus group B" "Streptoduocin"
"Streptococcus group B" "Streptomycin"
"Streptococcus group B" "Temocillin"
"Streptococcus group B" "Tobramycin"
"Streptococcus group C" "Amikacin/fosfomycin"
"Streptococcus group C" "Amikacin"
"Streptococcus group C" "Apramycin"
"Streptococcus group C" "Arbekacin"
"Streptococcus group C" "Astromicin"
"Streptococcus group C" "Aztreonam"
"Streptococcus group C" "Bekanamycin"
"Streptococcus group C" "Ceftazidime"
"Streptococcus group C" "Colistin"
"Streptococcus group C" "Dibekacin"
"Streptococcus group C" "Framycetin"
"Streptococcus group C" "Fusidic acid"
"Streptococcus group C" "Gentamicin"
"Streptococcus group C" "Habekacin"
"Streptococcus group C" "Hygromycin"
"Streptococcus group C" "Isepamicin"
"Streptococcus group C" "Kanamycin/cephalexin"
"Streptococcus group C" "Kanamycin"
"Streptococcus group C" "Micronomicin"
"Streptococcus group C" "Nalidixic acid"
"Streptococcus group C" "Neomycin"
"Streptococcus group C" "Netilmicin"
"Streptococcus group C" "Pentisomicin"
"Streptococcus group C" "Propikacin"
"Streptococcus group C" "Polymyxin B"
"Streptococcus group C" "Plazomicin"
"Streptococcus group C" "Ribostamycin"
"Streptococcus group C" "Sisomicin"
"Streptococcus group C" "Streptoduocin"
"Streptococcus group C" "Streptomycin"
"Streptococcus group C" "Temocillin"
"Streptococcus group C" "Tobramycin"
"Streptococcus group D" "Amikacin/fosfomycin"
"Streptococcus group D" "Amikacin"
"Streptococcus group D" "Apramycin"
"Streptococcus group D" "Arbekacin"
"Streptococcus group D" "Astromicin"
"Streptococcus group D" "Aztreonam"
"Streptococcus group D" "Bekanamycin"
"Streptococcus group D" "Ceftazidime"
"Streptococcus group D" "Colistin"
"Streptococcus group D" "Dibekacin"
"Streptococcus group D" "Framycetin"
"Streptococcus group D" "Fusidic acid"
"Streptococcus group D" "Gentamicin"
"Streptococcus group D" "Habekacin"
"Streptococcus group D" "Hygromycin"
"Streptococcus group D" "Isepamicin"
"Streptococcus group D" "Kanamycin/cephalexin"
"Streptococcus group D" "Kanamycin"
"Streptococcus group D" "Micronomicin"
"Streptococcus group D" "Nalidixic acid"
"Streptococcus group D" "Neomycin"
"Streptococcus group D" "Netilmicin"
"Streptococcus group D" "Pentisomicin"
"Streptococcus group D" "Propikacin"
"Streptococcus group D" "Polymyxin B"
"Streptococcus group D" "Plazomicin"
"Streptococcus group D" "Ribostamycin"
"Streptococcus group D" "Sisomicin"
"Streptococcus group D" "Streptoduocin"
"Streptococcus group D" "Streptomycin"
"Streptococcus group D" "Temocillin"
"Streptococcus group D" "Tobramycin"
"Streptococcus group F" "Amikacin/fosfomycin"
"Streptococcus group F" "Amikacin"
"Streptococcus group F" "Apramycin"
"Streptococcus group F" "Arbekacin"
"Streptococcus group F" "Astromicin"
"Streptococcus group F" "Aztreonam"
"Streptococcus group F" "Bekanamycin"
"Streptococcus group F" "Ceftazidime"
"Streptococcus group F" "Colistin"
"Streptococcus group F" "Dibekacin"
"Streptococcus group F" "Framycetin"
"Streptococcus group F" "Fusidic acid"
"Streptococcus group F" "Gentamicin"
"Streptococcus group F" "Habekacin"
"Streptococcus group F" "Hygromycin"
"Streptococcus group F" "Isepamicin"
"Streptococcus group F" "Kanamycin/cephalexin"
"Streptococcus group F" "Kanamycin"
"Streptococcus group F" "Micronomicin"
"Streptococcus group F" "Nalidixic acid"
"Streptococcus group F" "Neomycin"
"Streptococcus group F" "Netilmicin"
"Streptococcus group F" "Pentisomicin"
"Streptococcus group F" "Propikacin"
"Streptococcus group F" "Polymyxin B"
"Streptococcus group F" "Plazomicin"
"Streptococcus group F" "Ribostamycin"
"Streptococcus group F" "Sisomicin"
"Streptococcus group F" "Streptoduocin"
"Streptococcus group F" "Streptomycin"
"Streptococcus group F" "Temocillin"
"Streptococcus group F" "Tobramycin"
"Streptococcus group G" "Amikacin/fosfomycin"
"Streptococcus group G" "Amikacin"
"Streptococcus group G" "Apramycin"
"Streptococcus group G" "Arbekacin"
"Streptococcus group G" "Astromicin"
"Streptococcus group G" "Aztreonam"
"Streptococcus group G" "Bekanamycin"
"Streptococcus group G" "Ceftazidime"
"Streptococcus group G" "Colistin"
"Streptococcus group G" "Dibekacin"
"Streptococcus group G" "Framycetin"
"Streptococcus group G" "Fusidic acid"
"Streptococcus group G" "Gentamicin"
"Streptococcus group G" "Habekacin"
"Streptococcus group G" "Hygromycin"
"Streptococcus group G" "Isepamicin"
"Streptococcus group G" "Kanamycin/cephalexin"
"Streptococcus group G" "Kanamycin"
"Streptococcus group G" "Micronomicin"
"Streptococcus group G" "Nalidixic acid"
"Streptococcus group G" "Neomycin"
"Streptococcus group G" "Netilmicin"
"Streptococcus group G" "Pentisomicin"
"Streptococcus group G" "Propikacin"
"Streptococcus group G" "Polymyxin B"
"Streptococcus group G" "Plazomicin"
"Streptococcus group G" "Ribostamycin"
"Streptococcus group G" "Sisomicin"
"Streptococcus group G" "Streptoduocin"
"Streptococcus group G" "Streptomycin"
"Streptococcus group G" "Temocillin"
"Streptococcus group G" "Tobramycin"
"Streptococcus group H" "Amikacin/fosfomycin"
"Streptococcus group H" "Amikacin"
"Streptococcus group H" "Apramycin"
"Streptococcus group H" "Arbekacin"
"Streptococcus group H" "Astromicin"
"Streptococcus group H" "Aztreonam"
"Streptococcus group H" "Bekanamycin"
"Streptococcus group H" "Ceftazidime"
"Streptococcus group H" "Colistin"
"Streptococcus group H" "Dibekacin"
"Streptococcus group H" "Framycetin"
"Streptococcus group H" "Fusidic acid"
"Streptococcus group H" "Gentamicin"
"Streptococcus group H" "Habekacin"
"Streptococcus group H" "Hygromycin"
"Streptococcus group H" "Isepamicin"
"Streptococcus group H" "Kanamycin/cephalexin"
"Streptococcus group H" "Kanamycin"
"Streptococcus group H" "Micronomicin"
"Streptococcus group H" "Nalidixic acid"
"Streptococcus group H" "Neomycin"
"Streptococcus group H" "Netilmicin"
"Streptococcus group H" "Pentisomicin"
"Streptococcus group H" "Propikacin"
"Streptococcus group H" "Polymyxin B"
"Streptococcus group H" "Plazomicin"
"Streptococcus group H" "Ribostamycin"
"Streptococcus group H" "Sisomicin"
"Streptococcus group H" "Streptoduocin"
"Streptococcus group H" "Streptomycin"
"Streptococcus group H" "Temocillin"
"Streptococcus group H" "Tobramycin"
"Streptococcus group K" "Amikacin/fosfomycin"
"Streptococcus group K" "Amikacin"
"Streptococcus group K" "Apramycin"
"Streptococcus group K" "Arbekacin"
"Streptococcus group K" "Astromicin"
"Streptococcus group K" "Aztreonam"
"Streptococcus group K" "Bekanamycin"
"Streptococcus group K" "Ceftazidime"
"Streptococcus group K" "Colistin"
"Streptococcus group K" "Dibekacin"
"Streptococcus group K" "Framycetin"
"Streptococcus group K" "Fusidic acid"
"Streptococcus group K" "Gentamicin"
"Streptococcus group K" "Habekacin"
"Streptococcus group K" "Hygromycin"
"Streptococcus group K" "Isepamicin"
"Streptococcus group K" "Kanamycin/cephalexin"
"Streptococcus group K" "Kanamycin"
"Streptococcus group K" "Micronomicin"
"Streptococcus group K" "Nalidixic acid"
"Streptococcus group K" "Neomycin"
"Streptococcus group K" "Netilmicin"
"Streptococcus group K" "Pentisomicin"
"Streptococcus group K" "Propikacin"
"Streptococcus group K" "Polymyxin B"
"Streptococcus group K" "Plazomicin"
"Streptococcus group K" "Ribostamycin"
"Streptococcus group K" "Sisomicin"
"Streptococcus group K" "Streptoduocin"
"Streptococcus group K" "Streptomycin"
"Streptococcus group K" "Temocillin"
"Streptococcus group K" "Tobramycin"
"Streptococcus Group A" "Amikacin/fosfomycin"
"Streptococcus Group A" "Amikacin"
"Streptococcus Group A" "Apramycin"
"Streptococcus Group A" "Arbekacin"
"Streptococcus Group A" "Astromicin"
"Streptococcus Group A" "Aztreonam"
"Streptococcus Group A" "Bekanamycin"
"Streptococcus Group A" "Ceftazidime"
"Streptococcus Group A" "Colistin"
"Streptococcus Group A" "Dibekacin"
"Streptococcus Group A" "Framycetin"
"Streptococcus Group A" "Fusidic acid"
"Streptococcus Group A" "Gentamicin"
"Streptococcus Group A" "Habekacin"
"Streptococcus Group A" "Hygromycin"
"Streptococcus Group A" "Isepamicin"
"Streptococcus Group A" "Kanamycin/cephalexin"
"Streptococcus Group A" "Kanamycin"
"Streptococcus Group A" "Micronomicin"
"Streptococcus Group A" "Nalidixic acid"
"Streptococcus Group A" "Neomycin"
"Streptococcus Group A" "Netilmicin"
"Streptococcus Group A" "Pentisomicin"
"Streptococcus Group A" "Propikacin"
"Streptococcus Group A" "Polymyxin B"
"Streptococcus Group A" "Plazomicin"
"Streptococcus Group A" "Ribostamycin"
"Streptococcus Group A" "Sisomicin"
"Streptococcus Group A" "Streptoduocin"
"Streptococcus Group A" "Streptomycin"
"Streptococcus Group A" "Temocillin"
"Streptococcus Group A" "Tobramycin"
"Streptococcus Group B" "Amikacin/fosfomycin"
"Streptococcus Group B" "Amikacin"
"Streptococcus Group B" "Apramycin"
"Streptococcus Group B" "Arbekacin"
"Streptococcus Group B" "Astromicin"
"Streptococcus Group B" "Aztreonam"
"Streptococcus Group B" "Bekanamycin"
"Streptococcus Group B" "Ceftazidime"
"Streptococcus Group B" "Colistin"
"Streptococcus Group B" "Dibekacin"
"Streptococcus Group B" "Framycetin"
"Streptococcus Group B" "Fusidic acid"
"Streptococcus Group B" "Gentamicin"
"Streptococcus Group B" "Habekacin"
"Streptococcus Group B" "Hygromycin"
"Streptococcus Group B" "Isepamicin"
"Streptococcus Group B" "Kanamycin/cephalexin"
"Streptococcus Group B" "Kanamycin"
"Streptococcus Group B" "Micronomicin"
"Streptococcus Group B" "Nalidixic acid"
"Streptococcus Group B" "Neomycin"
"Streptococcus Group B" "Netilmicin"
"Streptococcus Group B" "Pentisomicin"
"Streptococcus Group B" "Propikacin"
"Streptococcus Group B" "Polymyxin B"
"Streptococcus Group B" "Plazomicin"
"Streptococcus Group B" "Ribostamycin"
"Streptococcus Group B" "Sisomicin"
"Streptococcus Group B" "Streptoduocin"
"Streptococcus Group B" "Streptomycin"
"Streptococcus Group B" "Temocillin"
"Streptococcus Group B" "Tobramycin"
"Streptococcus Group C" "Amikacin/fosfomycin"
"Streptococcus Group C" "Amikacin"
"Streptococcus Group C" "Apramycin"
"Streptococcus Group C" "Arbekacin"
"Streptococcus Group C" "Astromicin"
"Streptococcus Group C" "Aztreonam"
"Streptococcus Group C" "Bekanamycin"
"Streptococcus Group C" "Ceftazidime"
"Streptococcus Group C" "Colistin"
"Streptococcus Group C" "Dibekacin"
"Streptococcus Group C" "Framycetin"
"Streptococcus Group C" "Fusidic acid"
"Streptococcus Group C" "Gentamicin"
"Streptococcus Group C" "Habekacin"
"Streptococcus Group C" "Hygromycin"
"Streptococcus Group C" "Isepamicin"
"Streptococcus Group C" "Kanamycin/cephalexin"
"Streptococcus Group C" "Kanamycin"
"Streptococcus Group C" "Micronomicin"
"Streptococcus Group C" "Nalidixic acid"
"Streptococcus Group C" "Neomycin"
"Streptococcus Group C" "Netilmicin"
"Streptococcus Group C" "Pentisomicin"
"Streptococcus Group C" "Propikacin"
"Streptococcus Group C" "Polymyxin B"
"Streptococcus Group C" "Plazomicin"
"Streptococcus Group C" "Ribostamycin"
"Streptococcus Group C" "Sisomicin"
"Streptococcus Group C" "Streptoduocin"
"Streptococcus Group C" "Streptomycin"
"Streptococcus Group C" "Temocillin"
"Streptococcus Group C" "Tobramycin"
"Streptococcus Group D" "Amikacin/fosfomycin"
"Streptococcus Group D" "Amikacin"
"Streptococcus Group D" "Apramycin"
"Streptococcus Group D" "Arbekacin"
"Streptococcus Group D" "Astromicin"
"Streptococcus Group D" "Aztreonam"
"Streptococcus Group D" "Bekanamycin"
"Streptococcus Group D" "Ceftazidime"
"Streptococcus Group D" "Colistin"
"Streptococcus Group D" "Dibekacin"
"Streptococcus Group D" "Framycetin"
"Streptococcus Group D" "Fusidic acid"
"Streptococcus Group D" "Gentamicin"
"Streptococcus Group D" "Habekacin"
"Streptococcus Group D" "Hygromycin"
"Streptococcus Group D" "Isepamicin"
"Streptococcus Group D" "Kanamycin/cephalexin"
"Streptococcus Group D" "Kanamycin"
"Streptococcus Group D" "Micronomicin"
"Streptococcus Group D" "Nalidixic acid"
"Streptococcus Group D" "Neomycin"
"Streptococcus Group D" "Netilmicin"
"Streptococcus Group D" "Pentisomicin"
"Streptococcus Group D" "Propikacin"
"Streptococcus Group D" "Polymyxin B"
"Streptococcus Group D" "Plazomicin"
"Streptococcus Group D" "Ribostamycin"
"Streptococcus Group D" "Sisomicin"
"Streptococcus Group D" "Streptoduocin"
"Streptococcus Group D" "Streptomycin"
"Streptococcus Group D" "Temocillin"
"Streptococcus Group D" "Tobramycin"
"Streptococcus Group F" "Amikacin/fosfomycin"
"Streptococcus Group F" "Amikacin"
"Streptococcus Group F" "Apramycin"
"Streptococcus Group F" "Arbekacin"
"Streptococcus Group F" "Astromicin"
"Streptococcus Group F" "Aztreonam"
"Streptococcus Group F" "Bekanamycin"
"Streptococcus Group F" "Ceftazidime"
"Streptococcus Group F" "Colistin"
"Streptococcus Group F" "Dibekacin"
"Streptococcus Group F" "Framycetin"
"Streptococcus Group F" "Fusidic acid"
"Streptococcus Group F" "Gentamicin"
"Streptococcus Group F" "Habekacin"
"Streptococcus Group F" "Hygromycin"
"Streptococcus Group F" "Isepamicin"
"Streptococcus Group F" "Kanamycin/cephalexin"
"Streptococcus Group F" "Kanamycin"
"Streptococcus Group F" "Micronomicin"
"Streptococcus Group F" "Nalidixic acid"
"Streptococcus Group F" "Neomycin"
"Streptococcus Group F" "Netilmicin"
"Streptococcus Group F" "Pentisomicin"
"Streptococcus Group F" "Propikacin"
"Streptococcus Group F" "Polymyxin B"
"Streptococcus Group F" "Plazomicin"
"Streptococcus Group F" "Ribostamycin"
"Streptococcus Group F" "Sisomicin"
"Streptococcus Group F" "Streptoduocin"
"Streptococcus Group F" "Streptomycin"
"Streptococcus Group F" "Temocillin"
"Streptococcus Group F" "Tobramycin"
"Streptococcus Group G" "Amikacin/fosfomycin"
"Streptococcus Group G" "Amikacin"
"Streptococcus Group G" "Apramycin"
"Streptococcus Group G" "Arbekacin"
"Streptococcus Group G" "Astromicin"
"Streptococcus Group G" "Aztreonam"
"Streptococcus Group G" "Bekanamycin"
"Streptococcus Group G" "Ceftazidime"
"Streptococcus Group G" "Colistin"
"Streptococcus Group G" "Dibekacin"
"Streptococcus Group G" "Framycetin"
"Streptococcus Group G" "Fusidic acid"
"Streptococcus Group G" "Gentamicin"
"Streptococcus Group G" "Habekacin"
"Streptococcus Group G" "Hygromycin"
"Streptococcus Group G" "Isepamicin"
"Streptococcus Group G" "Kanamycin/cephalexin"
"Streptococcus Group G" "Kanamycin"
"Streptococcus Group G" "Micronomicin"
"Streptococcus Group G" "Nalidixic acid"
"Streptococcus Group G" "Neomycin"
"Streptococcus Group G" "Netilmicin"
"Streptococcus Group G" "Pentisomicin"
"Streptococcus Group G" "Propikacin"
"Streptococcus Group G" "Polymyxin B"
"Streptococcus Group G" "Plazomicin"
"Streptococcus Group G" "Ribostamycin"
"Streptococcus Group G" "Sisomicin"
"Streptococcus Group G" "Streptoduocin"
"Streptococcus Group G" "Streptomycin"
"Streptococcus Group G" "Temocillin"
"Streptococcus Group G" "Tobramycin"
"Streptococcus Group H" "Amikacin/fosfomycin"
"Streptococcus Group H" "Amikacin"
"Streptococcus Group H" "Apramycin"
"Streptococcus Group H" "Arbekacin"
"Streptococcus Group H" "Astromicin"
"Streptococcus Group H" "Aztreonam"
"Streptococcus Group H" "Bekanamycin"
"Streptococcus Group H" "Ceftazidime"
"Streptococcus Group H" "Colistin"
"Streptococcus Group H" "Dibekacin"
"Streptococcus Group H" "Framycetin"
"Streptococcus Group H" "Fusidic acid"
"Streptococcus Group H" "Gentamicin"
"Streptococcus Group H" "Habekacin"
"Streptococcus Group H" "Hygromycin"
"Streptococcus Group H" "Isepamicin"
"Streptococcus Group H" "Kanamycin/cephalexin"
"Streptococcus Group H" "Kanamycin"
"Streptococcus Group H" "Micronomicin"
"Streptococcus Group H" "Nalidixic acid"
"Streptococcus Group H" "Neomycin"
"Streptococcus Group H" "Netilmicin"
"Streptococcus Group H" "Pentisomicin"
"Streptococcus Group H" "Propikacin"
"Streptococcus Group H" "Polymyxin B"
"Streptococcus Group H" "Plazomicin"
"Streptococcus Group H" "Ribostamycin"
"Streptococcus Group H" "Sisomicin"
"Streptococcus Group H" "Streptoduocin"
"Streptococcus Group H" "Streptomycin"
"Streptococcus Group H" "Temocillin"
"Streptococcus Group H" "Tobramycin"
"Streptococcus Group K" "Amikacin/fosfomycin"
"Streptococcus Group K" "Amikacin"
"Streptococcus Group K" "Apramycin"
"Streptococcus Group K" "Arbekacin"
"Streptococcus Group K" "Astromicin"
"Streptococcus Group K" "Aztreonam"
"Streptococcus Group K" "Bekanamycin"
"Streptococcus Group K" "Ceftazidime"
"Streptococcus Group K" "Colistin"
"Streptococcus Group K" "Dibekacin"
"Streptococcus Group K" "Framycetin"
"Streptococcus Group K" "Fusidic acid"
"Streptococcus Group K" "Gentamicin"
"Streptococcus Group K" "Habekacin"
"Streptococcus Group K" "Hygromycin"
"Streptococcus Group K" "Isepamicin"
"Streptococcus Group K" "Kanamycin/cephalexin"
"Streptococcus Group K" "Kanamycin"
"Streptococcus Group K" "Micronomicin"
"Streptococcus Group K" "Nalidixic acid"
"Streptococcus Group K" "Neomycin"
"Streptococcus Group K" "Netilmicin"
"Streptococcus Group K" "Pentisomicin"
"Streptococcus Group K" "Propikacin"
"Streptococcus Group K" "Polymyxin B"
"Streptococcus Group K" "Plazomicin"
"Streptococcus Group K" "Ribostamycin"
"Streptococcus Group K" "Sisomicin"
"Streptococcus Group K" "Streptoduocin"
"Streptococcus Group K" "Streptomycin"
"Streptococcus Group K" "Temocillin"
"Streptococcus Group K" "Tobramycin"
"Streptococcus halichoeri" "Amikacin/fosfomycin"
"Streptococcus halichoeri" "Amikacin"
"Streptococcus halichoeri" "Apramycin"

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88f3ce0e84bf8336f43cd6565215db1d
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@@ -41483,7 +41483,6 @@
"B_SLMNL_CHRD" "Salmonella Chiredzi" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Chiredzi" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_CHTT" "Salmonella Chittagong" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Chittagong" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_CHLR" "Salmonella choleraesuis" "synonym" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "choleraesuis" "" "species" "Weldin, 1927" "LPSN" "780746" "516547" "784857" "7515106" "3221815" "9701185" 1 ""
"B_SLMNL_CHLRS" "Salmonella Choleraesuis" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Choleraesuis" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_CHLR_ARZN" "Salmonella choleraesuis arizonae" "synonym" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "choleraesuis" "arizonae" "subspecies" "Le Minor et al., 1985" "LPSN" "780747" "780746" "780755" "5427587" "7515106" "5427586" 1 ""
"B_SLMNL_CHLR_BNGR" "Salmonella choleraesuis bongori" "synonym" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "choleraesuis" "bongori" "subspecies" "Le Minor et al., 1985" "LPSN" "780748" "780746" "780745" "5427597" "7515106" "5427596" 1 ""
"B_SLMNL_CHLR_CHLR" "Salmonella choleraesuis choleraesuis" "synonym" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "choleraesuis" "choleraesuis" "subspecies" "Le Minor et al., 1985" "LPSN" "780749" "780746" "780758" "5427590" "7515106" "5427589" 1 ""
@@ -41624,7 +41623,6 @@
"B_SLMNL_ENTR_INDC" "Salmonella enterica indica" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "indica" "subspecies" "Le Minor et al., 1987" "LPSN" "780760" "784857" "5427582" "9701185" 1 ""
"B_SLMNL_ENTR_SALM" "Salmonella enterica salamae" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "salamae" "subspecies" "Le Minor et al., 1987" "LPSN" "780761" "784857" "5427584" "9701185" 1 ""
"B_SLMNL_RTDS" "Salmonella enteritidis" "synonym" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enteritidis" "" "species" "Castellani et al., 1919" "LPSN" "780762" "516547" "784857" "5427592" "3221815" "9701185" 1 ""
"B_SLMNL_ENTRT" "Salmonella Enteritidis" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Enteritidis" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_ENUG" "Salmonella Enugu" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Enugu" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_EPLN" "Salmonella Epalinges" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Epalinges" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_EPCR" "Salmonella Epicrates" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Epicrates" "subspecies" "manually added" "784857" "9701185" 1 ""
@@ -42279,7 +42277,6 @@
"B_SLMNL_PLMN" "Salmonella Palamaner" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Palamaner" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_PALM" "Salmonella Palime" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Palime" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_PANM" "Salmonella panama" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "panama" "" "species" "Kauffmann, 1934" "GBIF" "9407232" "3221815" 1 ""
"B_SLMNL_PANAM" "Salmonella Panama" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Panama" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_PAPN" "Salmonella Papuana" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Papuana" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_PARK" "Salmonella Parakou" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Parakou" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_PRTY" "Salmonella paratyphi" "synonym" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "paratyphi" "" "species" "Ezaki et al., 2000" "LPSN" "784858" "516547" "784857" "5427593" "3221815" "9701185" 1 "840687007"
@@ -42577,7 +42574,6 @@
"B_SLMNL_TUDU" "Salmonella Tudu" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Tudu" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_TUMD" "Salmonella Tumodi" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Tumodi" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_TYPH" "Salmonella typhi" "synonym" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "typhi" "" "species" "Warren et al., 1930" "LPSN" "784859" "516547" "784857" "5427594" "3221815" "9701185" 1 "712764007"
"B_SLMNL_TYPHI" "Salmonella Typhi" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Typhi" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_HMRM" "Salmonella typhimurium" "synonym" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "typhimurium" "" "species" "Castellani et al., 1919" "LPSN" "780770" "516547" "784857" "5427591" "3221815" "9701185" 1 ""
"B_SLMNL_THSS" "Salmonella Typhisuis" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Typhisuis" "subspecies" "manually added" "784857" "9701185" 1 ""
"B_SLMNL_TYRS" "Salmonella Tyresoe" "accepted" "Bacteria" "Pseudomonadota" "Gammaproteobacteria" "Enterobacterales" "Enterobacteriaceae" "Salmonella" "enterica" "Tyresoe" "subspecies" "manually added" "784857" "9701185" 1 ""
@@ -45499,15 +45495,15 @@
"B_STRPT_GLLL_PSTR" "Streptococcus gallolyticus pasteurianus" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "gallolyticus" "pasteurianus" "subspecies" "Beck et al., 2008" "LPSN" "781340" "781337" "3227070" 1 ""
"B_STRPT_GARV" "Streptococcus garvieae" "synonym" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "garvieae" "" "species" "Collins et al., 1984" "LPSN" "781341" "517118" "777418" 1 ""
"B_STRPT_GRDN" "Streptococcus gordonii" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "gordonii" "" "species" "Kilian et al., 1989" "LPSN" "781342" "517118" 1 "113986004"
"B_STRPT_GRPA" "Streptococcus group A" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "group A" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPB" "Streptococcus group B" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "group B" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPC" "Streptococcus group C" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "group C" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPD" "Streptococcus group D" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "group D" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPF" "Streptococcus group F" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "group F" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPG" "Streptococcus group G" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "group G" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPH" "Streptococcus group H" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "group H" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPK" "Streptococcus group K" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "group K" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPL" "Streptococcus group L" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "group L" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPA" "Streptococcus Group A" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "Group A" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPB" "Streptococcus Group B" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "Group B" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPC" "Streptococcus Group C" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "Group C" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPD" "Streptococcus Group D" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "Group D" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPF" "Streptococcus Group F" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "Group F" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPG" "Streptococcus Group G" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "Group G" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPH" "Streptococcus Group H" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "Group H" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPK" "Streptococcus Group K" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "Group K" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GRPL" "Streptococcus Group L" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "Group L" "" "species" "Lancefield, 1933" "manually added" 1 ""
"B_STRPT_GWNG" "Streptococcus gwangjuense" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "gwangjuense" "" "species" "GBIF" "11190550" "3223465" 1 ""
"B_STRPT_HLCH" "Streptococcus halichoeri" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "halichoeri" "" "species" "Shewmaker et al., 2016" "LPSN" "781344" "517118" 1 "438161002"
"B_STRPT_HLTS" "Streptococcus halitosis" "accepted" "Bacteria" "Bacillota" "Bacilli" "Lactobacillales" "Streptococcaceae" "Streptococcus" "halitosis" "" "species" "GBIF" "10822581" "3223465" 1 ""

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@@ -763,8 +763,8 @@
"EUCAST 2022" "MIC" "UTI" "B_ESCHR_COLI" "Escherichia coli" 2 "NIT" "Nitrofurantoin" "Enterobacteriaceae" 64 64 TRUE
"EUCAST 2022" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "NIT" "Nitrofurantoin" "Staphs" 64 64 TRUE
"EUCAST 2022" "DISK" "UTI" "B_STPHY_SPRP_SPRP" "Staphylococcus saprophyticus saprophyticus" 1 "NIT" "Nitrofurantoin" "Staphs" "100ug" 13 13 TRUE
"EUCAST 2022" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2022" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2022" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2022" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2022" "DISK" "UTI" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" "10ug" 22 22 TRUE
"EUCAST 2022" "MIC" "UTI" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" 0.5 0.5 TRUE
"EUCAST 2022" "DISK" "B_AERCC" "Aerococcus" 3 "NOR" "Norfloxacin" "Aerococcus" "10ug" 17 17 FALSE
@@ -1039,7 +1039,7 @@
"EUCAST 2022" "MIC" "UTI" "B_ENTRC" "Enterococcus" 3 "TMP" "Trimethoprim" "Enterococcus" 0.032 1 TRUE
"EUCAST 2022" "DISK" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" "5ug" 14 14 TRUE
"EUCAST 2022" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" 4 4 TRUE
"EUCAST 2022" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2022" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2022" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" "10ug" 16 16 FALSE
"EUCAST 2022" "DISK" "UTI" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" "10ug" 16 16 TRUE
"EUCAST 2022" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" 2 2 FALSE
@@ -1756,8 +1756,8 @@
"EUCAST 2021" "MIC" "UTI" "B_ESCHR_COLI" "Escherichia coli" 2 "NIT" "Nitrofurantoin" "Enterobacteriaceae" 64 64 TRUE
"EUCAST 2021" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "NIT" "Nitrofurantoin" "Staphs" 64 64 TRUE
"EUCAST 2021" "DISK" "UTI" "B_STPHY_SPRP_SPRP" "Staphylococcus saprophyticus saprophyticus" 1 "NIT" "Nitrofurantoin" "Staphs" "100ug" 13 13 TRUE
"EUCAST 2021" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2021" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2021" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2021" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2021" "DISK" "UTI" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" "10ug" 22 22 TRUE
"EUCAST 2021" "MIC" "UTI" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" 0.5 0.5 TRUE
"EUCAST 2021" "DISK" "B_AERCC" "Aerococcus" 3 "NOR" "Norfloxacin" "Aerococcus" "10ug" 17 17 FALSE
@@ -1995,7 +1995,7 @@
"EUCAST 2021" "MIC" "UTI" "B_ENTRC" "Enterococcus" 3 "TMP" "Trimethoprim" "Enterococcus" 0.032 1 TRUE
"EUCAST 2021" "DISK" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" "5ug" 14 14 TRUE
"EUCAST 2021" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" 4 4 TRUE
"EUCAST 2021" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2021" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2021" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" "10ug" 16 16 FALSE
"EUCAST 2021" "DISK" "UTI" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" "10ug" 16 16 TRUE
"EUCAST 2021" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" 2 2 FALSE
@@ -2622,8 +2622,8 @@
"EUCAST 2020" "MIC" "UTI" "B_ESCHR_COLI" "Escherichia coli" 2 "NIT" "Nitrofurantoin" "Enterobacteriaceae" 64 64 TRUE
"EUCAST 2020" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "NIT" "Nitrofurantoin" "Staphs" 64 64 TRUE
"EUCAST 2020" "DISK" "UTI" "B_STPHY_SPRP_SPRP" "Staphylococcus saprophyticus saprophyticus" 1 "NIT" "Nitrofurantoin" "Staphs" "100ug" 13 13 TRUE
"EUCAST 2020" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2020" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2020" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2020" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2020" "DISK" "UTI" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" "10ug" 22 22 TRUE
"EUCAST 2020" "MIC" "UTI" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" 0.5 0.5 TRUE
"EUCAST 2020" "DISK" "B_AERCC" "Aerococcus" 3 "NOR" "Norfloxacin" "Aerococcus" "10ug" 17 17 FALSE
@@ -2841,7 +2841,7 @@
"EUCAST 2020" "MIC" "UTI" "B_ENTRC" "Enterococcus" 3 "TMP" "Trimethoprim" "Enterococcus" 0.032 1 TRUE
"EUCAST 2020" "DISK" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" "5ug" 14 14 TRUE
"EUCAST 2020" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" 4 4 TRUE
"EUCAST 2020" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2020" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2020" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" "10ug" 17 17 FALSE
"EUCAST 2020" "DISK" "UTI" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" "10ug" 17 17 TRUE
"EUCAST 2020" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" 2 2 FALSE
@@ -3421,8 +3421,8 @@
"EUCAST 2019" "MIC" "UTI" "B_ENTRC_FCLS" "Enterococcus faecalis" 2 "NIT" "Nitrofurantoin" "Enterococcus" 64 64 TRUE
"EUCAST 2019" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "NIT" "Nitrofurantoin" "Staphs" 64 64 TRUE
"EUCAST 2019" "DISK" "UTI" "B_STPHY_SPRP_SPRP" "Staphylococcus saprophyticus saprophyticus" 1 "NIT" "Nitrofurantoin" "Staphs" "100ug" 13 13 TRUE
"EUCAST 2019" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2019" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2019" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2019" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2019" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" "10ug" 22 19 FALSE
"EUCAST 2019" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" 0.5 1 FALSE
"EUCAST 2019" "DISK" "B_AERCC" "Aerococcus" 3 "NOR" "Norfloxacin" "Aerococcus" "10ug" 17 17 FALSE
@@ -3627,7 +3627,7 @@
"EUCAST 2019" "MIC" "UTI" "B_ENTRC" "Enterococcus" 3 "TMP" "Trimethoprim" "Enterococcus" 0.032 1 TRUE
"EUCAST 2019" "DISK" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" "5ug" 17 14 TRUE
"EUCAST 2019" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" 2 4 TRUE
"EUCAST 2019" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2019" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2019" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" "10ug" 17 14 FALSE
"EUCAST 2019" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" 2 4 FALSE
"EUCAST 2019" "DISK" "B_ACNTB" "Acinetobacter" 3 "TOB" "Tobramycin" "Acinetobacter spp." "10ug" 17 17 FALSE
@@ -4184,8 +4184,8 @@
"EUCAST 2018" "MIC" "UTI" "B_ENTRC_FCLS" "Enterococcus faecalis" 2 "NIT" "Nitrofurantoin" "Enterococcus" 64 64 TRUE
"EUCAST 2018" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "NIT" "Nitrofurantoin" "Staphs" 64 64 TRUE
"EUCAST 2018" "DISK" "UTI" "B_STPHY_SPRP_SPRP" "Staphylococcus saprophyticus saprophyticus" 1 "NIT" "Nitrofurantoin" "Staphs" "100ug" 13 13 TRUE
"EUCAST 2018" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2018" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2018" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2018" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2018" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" "10ug" 22 19 FALSE
"EUCAST 2018" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" 0.5 1 FALSE
"EUCAST 2018" "DISK" "B_AERCC" "Aerococcus" 3 "NOR" "Norfloxacin" "Aerococcus" "10ug" 17 17 FALSE
@@ -4389,7 +4389,7 @@
"EUCAST 2018" "MIC" "UTI" "B_ENTRC" "Enterococcus" 3 "TMP" "Trimethoprim" "Enterococcus" 0.032 1 TRUE
"EUCAST 2018" "DISK" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" "5ug" 17 14 TRUE
"EUCAST 2018" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" 2 4 TRUE
"EUCAST 2018" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2018" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2018" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" "10ug" 17 14 FALSE
"EUCAST 2018" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" 2 4 FALSE
"EUCAST 2018" "DISK" "B_ACNTB" "Acinetobacter" 3 "TOB" "Tobramycin" "Acinetobacter spp." "10ug" 17 17 FALSE
@@ -4931,8 +4931,8 @@
"EUCAST 2017" "MIC" "UTI" "B_ENTRC_FCLS" "Enterococcus faecalis" 2 "NIT" "Nitrofurantoin" "Enterococcus" 64 64 TRUE
"EUCAST 2017" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "NIT" "Nitrofurantoin" "Staphs" 64 64 TRUE
"EUCAST 2017" "DISK" "UTI" "B_STPHY_SPRP_SPRP" "Staphylococcus saprophyticus saprophyticus" 1 "NIT" "Nitrofurantoin" "Staphs" "100ug" 13 13 TRUE
"EUCAST 2017" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2017" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2017" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2017" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2017" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" "10ug" 22 19 FALSE
"EUCAST 2017" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" 0.5 1 FALSE
"EUCAST 2017" "DISK" "B_AERCC" "Aerococcus" 3 "NOR" "Norfloxacin" "Aerococcus" "10ug" 17 17 FALSE
@@ -5136,7 +5136,7 @@
"EUCAST 2017" "MIC" "UTI" "B_ENTRC" "Enterococcus" 3 "TMP" "Trimethoprim" "Enterococcus" 0.032 1 TRUE
"EUCAST 2017" "DISK" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" "5ug" 17 14 TRUE
"EUCAST 2017" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" 2 4 TRUE
"EUCAST 2017" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2017" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2017" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" "10ug" 17 14 FALSE
"EUCAST 2017" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" 2 4 FALSE
"EUCAST 2017" "DISK" "B_ACNTB" "Acinetobacter" 3 "TOB" "Tobramycin" "Acinetobacter spp." "10ug" 17 17 FALSE
@@ -5637,8 +5637,8 @@
"EUCAST 2016" "MIC" "UTI" "B_ENTRC_FCLS" "Enterococcus faecalis" 2 "NIT" "Nitrofurantoin" "Enterococcus" 64 64 TRUE
"EUCAST 2016" "DISK" "UTI" "B_STPHY" "Staphylococcus" 3 "NIT" "Nitrofurantoin" "Staphs" "100ug" 13 13 TRUE
"EUCAST 2016" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "NIT" "Nitrofurantoin" "Staphs" 64 64 TRUE
"EUCAST 2016" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2016" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2016" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2016" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2016" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" "10ug" 22 19 FALSE
"EUCAST 2016" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" 0.5 1 FALSE
"EUCAST 2016" "DISK" "Screen" "B_ENTRC" "Enterococcus" 3 "NOR" "Norfloxacin" "Enterococcus" "10ug" 12 12 FALSE
@@ -5822,7 +5822,7 @@
"EUCAST 2016" "MIC" "UTI" "B_ENTRC" "Enterococcus" 3 "TMP" "Trimethoprim" "Enterococcus" 0.032 1 TRUE
"EUCAST 2016" "DISK" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" "5ug" 17 14 TRUE
"EUCAST 2016" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" 2 4 TRUE
"EUCAST 2016" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2016" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2016" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" "10ug" 17 14 FALSE
"EUCAST 2016" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" 2 4 FALSE
"EUCAST 2016" "DISK" "B_ACNTB" "Acinetobacter" 3 "TOB" "Tobramycin" "Acinetobacter spp." "10ug" 17 17 FALSE
@@ -6306,8 +6306,8 @@
"EUCAST 2015" "MIC" "UTI" "B_ENTRC_FCLS" "Enterococcus faecalis" 2 "NIT" "Nitrofurantoin" "Enterococcus" 64 64 TRUE
"EUCAST 2015" "DISK" "UTI" "B_STPHY" "Staphylococcus" 3 "NIT" "Nitrofurantoin" "Staphs" "100ug" 13 13 TRUE
"EUCAST 2015" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "NIT" "Nitrofurantoin" "Staphs" 64 64 TRUE
"EUCAST 2015" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2015" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2015" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2015" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2015" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" "10ug" 22 19 FALSE
"EUCAST 2015" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" 0.5 1 FALSE
"EUCAST 2015" "DISK" "Screen" "B_ENTRC" "Enterococcus" 3 "NOR" "Norfloxacin" "Enterococcus" "10ug" 12 12 FALSE
@@ -6484,7 +6484,7 @@
"EUCAST 2015" "MIC" "UTI" "B_ENTRC" "Enterococcus" 3 "TMP" "Trimethoprim" "Enterococcus" 0.032 1 TRUE
"EUCAST 2015" "DISK" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" "5ug" 17 14 TRUE
"EUCAST 2015" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" 2 4 TRUE
"EUCAST 2015" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2015" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2015" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" "10ug" 17 14 FALSE
"EUCAST 2015" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" 2 4 FALSE
"EUCAST 2015" "DISK" "B_ACNTB" "Acinetobacter" 3 "TOB" "Tobramycin" "Acinetobacter spp." "10ug" 17 17 FALSE
@@ -6961,8 +6961,8 @@
"EUCAST 2014" "MIC" "UTI" "B_ENTRC_FCLS" "Enterococcus faecalis" 2 "NIT" "Nitrofurantoin" "Enterococcus" 64 64 TRUE
"EUCAST 2014" "DISK" "UTI" "B_STPHY" "Staphylococcus" 3 "NIT" "Nitrofurantoin" "Staphs" "100ug" 13 13 TRUE
"EUCAST 2014" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "NIT" "Nitrofurantoin" "Staphs" 64 64 TRUE
"EUCAST 2014" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2014" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2014" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" "100ug" 15 15 TRUE
"EUCAST 2014" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strep A, B, C, G" 64 64 TRUE
"EUCAST 2014" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" "10ug" 22 19 FALSE
"EUCAST 2014" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" 0.5 1 FALSE
"EUCAST 2014" "DISK" "Screen" "B_ENTRC" "Enterococcus" 3 "NOR" "Norfloxacin" "Enterococcus" "10ug" 12 12 FALSE
@@ -7139,7 +7139,7 @@
"EUCAST 2014" "MIC" "UTI" "B_ENTRC" "Enterococcus" 3 "TMP" "Trimethoprim" "Enterococcus" 0.032 1 TRUE
"EUCAST 2014" "DISK" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" "5ug" 17 14 TRUE
"EUCAST 2014" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" 2 4 TRUE
"EUCAST 2014" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2014" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "TMP" "Trimethoprim" "Strep A, B, C, G" 2 2 TRUE
"EUCAST 2014" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" "10ug" 17 14 FALSE
"EUCAST 2014" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" 2 4 FALSE
"EUCAST 2014" "DISK" "B_ACNTB" "Acinetobacter" 3 "TOB" "Tobramycin" "Acinetobacter spp." "10ug" 17 17 FALSE
@@ -7607,8 +7607,8 @@
"EUCAST 2013" "MIC" "UTI" "B_ENTRC_FCLS" "Enterococcus faecalis" 2 "NIT" "Nitrofurantoin" "Enterococcus" 64 64 TRUE
"EUCAST 2013" "DISK" "UTI" "B_STPHY_SPRP_SPRP" "Staphylococcus saprophyticus saprophyticus" 1 "NIT" "Nitrofurantoin" "Staphs" "100ug" 13 13 TRUE
"EUCAST 2013" "MIC" "UTI" "B_STPHY_SPRP_SPRP" "Staphylococcus saprophyticus saprophyticus" 1 "NIT" "Nitrofurantoin" "Staphs" 64 64 TRUE
"EUCAST 2013" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strept A,B,C,G" "100ug" 15 15 TRUE
"EUCAST 2013" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "NIT" "Nitrofurantoin" "Strept A,B,C,G" 64 64 TRUE
"EUCAST 2013" "DISK" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strept A,B,C,G" "100ug" 15 15 TRUE
"EUCAST 2013" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "NIT" "Nitrofurantoin" "Strept A,B,C,G" 64 64 TRUE
"EUCAST 2013" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" "10ug" 22 19 FALSE
"EUCAST 2013" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "NOR" "Norfloxacin" "Enterobacteriaceae" 0.5 1 FALSE
"EUCAST 2013" "DISK" "B_STPHY" "Staphylococcus" 3 "NOR" "Norfloxacin" "Staphs" "10ug" 17 17 FALSE
@@ -7780,7 +7780,7 @@
"EUCAST 2013" "MIC" "UTI" "B_ENTRC" "Enterococcus" 3 "TMP" "Trimethoprim" "Enterococcus" 0.032 1 TRUE
"EUCAST 2013" "DISK" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" "5ug" 17 14 TRUE
"EUCAST 2013" "MIC" "UTI" "B_STPHY" "Staphylococcus" 3 "TMP" "Trimethoprim" "Staphs" 2 4 TRUE
"EUCAST 2013" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus group B" 2 "TMP" "Trimethoprim" "Strept A,B,C,G" 2 2 TRUE
"EUCAST 2013" "MIC" "UTI" "B_STRPT_GRPB" "Streptococcus Group B" 2 "TMP" "Trimethoprim" "Strept A,B,C,G" 2 2 TRUE
"EUCAST 2013" "DISK" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" "10ug" 17 14 FALSE
"EUCAST 2013" "MIC" "B_[ORD]_ENTRBCTR" "Enterobacterales" 5 "TOB" "Tobramycin" "Enterobacteriaceae" 2 4 FALSE
"EUCAST 2013" "DISK" "B_ACNTB" "Acinetobacter" 3 "TOB" "Tobramycin" "Acinetob" "10ug" 17 17 FALSE

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data-raw/rsi_translation.xlsx
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4
data-raw/salmonellae.R
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@@ -1564,6 +1564,10 @@ salmonellae <- tibble(
gbif_parent = 9701185
)
salmonellae <- salmonellae %>%
# remove e.g. Salmonella Enteritidis if Salmonella enteritidis already existed
filter(!tolower(fullname) %in% tolower(AMR::microorganisms$fullname))
groups <- c("Paratyphi A",
"Paratyphi B",
"Paratyphi C",

1
data-raw/translations.tsv
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@@ -19,6 +19,7 @@ unknown species TRUE TRUE FALSE TRUE 未知种 ukendt art onbekende soort espèc
unknown subspecies TRUE TRUE FALSE TRUE 未知亚种 ukendt underart onbekende ondersoort sous-espèce inconnue unbekannte Unterart άγνωστο υποείδος sottospecie sconosciute 亜種不明 nieznany podgatunek subespécies desconhecida неизвестный подвид subespecie desconocida okänd underart bilinmeyen alt türler невідомий підвид
unknown rank TRUE TRUE FALSE TRUE 未知等级 ukendt rang onbekende rang rang inconnu unbekannter Rang άγνωστη τάξη grado sconosciuto 未知ランク nieznany stopień classificação desconhecido неизвестный ранг rango desconocido okänd rang bilinmeyen rütbe невідомий ранг
group TRUE TRUE FALSE TRUE 组 gruppe groep groupe Gruppe ομάδα gruppo グループ grupa grupo группа grupo grupp Grup група
Group TRUE TRUE FALSE TRUE 组 Gruppe groep groupe Gruppe Ομάδα Gruppo グループ Grupa Grupo Группа Grupo Grupp Grup Група
CoNS FALSE TRUE FALSE TRUE KNS CNS KNS CoNS グラム陰性 CoNS КОС SCN KNS KNS КНС
CoPS FALSE TRUE FALSE TRUE KPS CPS KPS CoPS グラム陽性 CoPS КПС SCP KPS KPS КПС
Gram-negative TRUE TRUE FALSE FALSE 革兰氏阴性 Gram-negativ Gram-negatief Gram négatif Gramnegativ Αρνητικό κατά Gram Gram negativo ^細菌$ Gram-ujemne Gram negativo Грамотрицательные Gram negativo Gram-negativ Gram-negatif Грамнегативні
1 pattern regular_expr case_sensitive affect_ab_name affect_mo_name zh da nl fr de el it ja pl pt ru es sv tr uk
19 unknown subspecies TRUE TRUE FALSE TRUE 未知亚种 ukendt underart onbekende ondersoort sous-espèce inconnue unbekannte Unterart άγνωστο υποείδος sottospecie sconosciute 亜種不明 nieznany podgatunek subespécies desconhecida неизвестный подвид subespecie desconocida okänd underart bilinmeyen alt türler невідомий підвид
20 unknown rank TRUE TRUE FALSE TRUE 未知等级 ukendt rang onbekende rang rang inconnu unbekannter Rang άγνωστη τάξη grado sconosciuto 未知ランク nieznany stopień classificação desconhecido неизвестный ранг rango desconocido okänd rang bilinmeyen rütbe невідомий ранг
21 group TRUE TRUE FALSE TRUE 组 gruppe groep groupe Gruppe ομάδα gruppo グループ grupa grupo группа grupo grupp Grup група
22 Group TRUE TRUE FALSE TRUE 组 Gruppe groep groupe Gruppe Ομάδα Gruppo グループ Grupa Grupo Группа Grupo Grupp Grup Група
23 CoNS FALSE TRUE FALSE TRUE KNS CNS KNS CoNS グラム陰性 CoNS КОС SCN KNS KNS КНС
24 CoPS FALSE TRUE FALSE TRUE KPS CPS KPS CoPS グラム陽性 CoPS КПС SCP KPS KPS КПС
25 Gram-negative TRUE TRUE FALSE FALSE 革兰氏阴性 Gram-negativ Gram-negatief Gram négatif Gramnegativ Αρνητικό κατά Gram Gram negativo ^細菌$ Gram-ujemne Gram negativo Грамотрицательные Gram negativo Gram-negativ Gram-negatif Грамнегативні