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new EUCAST rules algorithm

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dr. M.S. (Matthijs) Berends
2019-04-05 18:47:39 +02:00
parent 56d4b4719f
commit fbc9191b13
115 changed files with 1340 additions and 2174 deletions
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if_mo_property like_is_one_of this_value and_these_antibiotics have_these_values then_change_these_antibiotics to_value reference.rule reference.rule_group
order is Enterobacteriales ampi S amox S Enterobacteriales (Order) Breakpoints
order is Enterobacteriales ampi I amox I Enterobacteriales (Order) Breakpoints
order is Enterobacteriales ampi R amox R Enterobacteriales (Order) Breakpoints
genus is Staphylococcus peni, cfox S ampi, amox, pipe, tica S Staphylococcus Breakpoints
genus is Staphylococcus peni, cfox R, S oxac, clox S Staphylococcus Breakpoints
genus is Staphylococcus cfox R all_betalactams R Staphylococcus Breakpoints
genus_species is Staphylococcus saprophyticus ampi S amox, amcl, pipe, pita S Staphylococcus Breakpoints
genus is Staphylococcus cfox S carbapenems, cephalosporins_without_cfta S Staphylococcus Breakpoints
genus is Staphylococcus cfox I carbapenems, cephalosporins_without_cfta I Staphylococcus Breakpoints
genus is Staphylococcus cfox R carbapenems, cephalosporins_without_cfta R Staphylococcus Breakpoints
genus is Staphylococcus norf S cipr, levo, moxi, oflo S Staphylococcus Breakpoints
genus is Staphylococcus eryt S azit, clar, roxi S Staphylococcus Breakpoints
genus is Staphylococcus eryt I azit, clar, roxi I Staphylococcus Breakpoints
genus is Staphylococcus eryt R azit, clar, roxi R Staphylococcus Breakpoints
genus is Staphylococcus tetr S doxy, mino S Staphylococcus Breakpoints
genus_species is Enterococcus faecium ampi R all_betalactams R Enterococcus Breakpoints
genus is Enterococcus ampi S amox, amcl, pipe, pita S Enterococcus Breakpoints
genus is Enterococcus ampi I amox, amcl, pipe, pita I Enterococcus Breakpoints
genus is Enterococcus ampi R amox, amcl, pipe, pita R Enterococcus Breakpoints
genus is Enterococcus norf S cipr, levo S Enterococcus Breakpoints
genus is Enterococcus norf I cipr, levo I Enterococcus Breakpoints
genus is Enterococcus norf R cipr, levo R Enterococcus Breakpoints
genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ peni S aminopenicillins, ureidopenicillins, cephalosporins, carbapenems, clox, amcl S Streptococcus groups A, B, C, G Breakpoints
genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ peni I aminopenicillins, ureidopenicillins, cephalosporins, carbapenems, clox, amcl I Streptococcus groups A, B, C, G Breakpoints
genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ peni R aminopenicillins, ureidopenicillins, cephalosporins, carbapenems, clox, amcl R Streptococcus groups A, B, C, G Breakpoints
genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ norf S levo, moxi S Streptococcus groups A, B, C, G Breakpoints
genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ eryt S azit, clar, roxi S Streptococcus groups A, B, C, G Breakpoints
genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ eryt I azit, clar, roxi I Streptococcus groups A, B, C, G Breakpoints
genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ eryt R azit, clar, roxi R Streptococcus groups A, B, C, G Breakpoints
genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ tetr S doxy, mino S Streptococcus groups A, B, C, G Breakpoints
genus_species is Streptococcus pneumoniae peni S ampi, amox, amcl, pipe, pita S Streptococcus pneumoniae Breakpoints
genus_species is Streptococcus pneumoniae ampi S amox, amcl, pipe, pita S Streptococcus pneumoniae Breakpoints
genus_species is Streptococcus pneumoniae ampi I amox, amcl, pipe, pita I Streptococcus pneumoniae Breakpoints
genus_species is Streptococcus pneumoniae ampi R amox, amcl, pipe, pita R Streptococcus pneumoniae Breakpoints
genus_species is Streptococcus pneumoniae norf S levo, moxi S Streptococcus pneumoniae Breakpoints
genus_species is Streptococcus pneumoniae eryt S azit, clar, roxi S Streptococcus pneumoniae Breakpoints
genus_species is Streptococcus pneumoniae eryt I azit, clar, roxi I Streptococcus pneumoniae Breakpoints
genus_species is Streptococcus pneumoniae eryt R azit, clar, roxi R Streptococcus pneumoniae Breakpoints
genus_species is Streptococcus pneumoniae tetr S doxy, mino S Streptococcus pneumoniae Breakpoints
genus_species like ^Streptococcus (australis|bovis|constellatus|cristatus|gallolyticus|gordonii|infantarius|infantis|mitis|mutans|oligofermentans|oralis|peroris|pseudopneumoniae|salivarius|sinensis|sobrinus|thermophilus|vestibularis|anginosus|equinus|intermedius|parasanguinis|sanguinis)$ peni S ampi, amox, amcl, pipe, pita S Viridans group streptococci Breakpoints
genus_species like ^Streptococcus (australis|bovis|constellatus|cristatus|gallolyticus|gordonii|infantarius|infantis|mitis|mutans|oligofermentans|oralis|peroris|pseudopneumoniae|salivarius|sinensis|sobrinus|thermophilus|vestibularis|anginosus|equinus|intermedius|parasanguinis|sanguinis)$ ampi S amox, amcl, pipe, pita S Viridans group streptococci Breakpoints
genus_species like ^Streptococcus (australis|bovis|constellatus|cristatus|gallolyticus|gordonii|infantarius|infantis|mitis|mutans|oligofermentans|oralis|peroris|pseudopneumoniae|salivarius|sinensis|sobrinus|thermophilus|vestibularis|anginosus|equinus|intermedius|parasanguinis|sanguinis)$ ampi I amox, amcl, pipe, pita I Viridans group streptococci Breakpoints
genus_species like ^Streptococcus (australis|bovis|constellatus|cristatus|gallolyticus|gordonii|infantarius|infantis|mitis|mutans|oligofermentans|oralis|peroris|pseudopneumoniae|salivarius|sinensis|sobrinus|thermophilus|vestibularis|anginosus|equinus|intermedius|parasanguinis|sanguinis)$ ampi R amox, amcl, pipe, pita R Viridans group streptococci Breakpoints
genus_species is Haemophilus influenzae ampi S amox, pipe S Haemophilus influenzae Breakpoints
genus_species is ^Haemophilus influenzae ampi I amox, pipe I Haemophilus influenzae Breakpoints
genus_species is Haemophilus influenzae ampi R amox, pipe R Haemophilus influenzae Breakpoints
genus_species is Haemophilus influenzae peni S ampi, amox, amcl, pipe, pita S Haemophilus influenzae Breakpoints
genus_species is Haemophilus influenzae amcl S pita S Haemophilus influenzae Breakpoints
genus_species is Haemophilus influenzae amcl I pita I Haemophilus influenzae Breakpoints
genus_species is Haemophilus influenzae amcl R pita R Haemophilus influenzae Breakpoints
genus_species is Haemophilus influenzae nali S cipr, levo, moxi, oflo S Haemophilus influenzae Breakpoints
genus_species is Haemophilus influenzae tetr S doxy, mino S Haemophilus influenzae Breakpoints
genus_species is Moraxella catarrhalis amcl S pita S Moraxella catarrhalis Breakpoints
genus_species is Moraxella catarrhalis amcl I pita I Moraxella catarrhalis Breakpoints
genus_species is Moraxella catarrhalis amcl R pita R Moraxella catarrhalis Breakpoints
genus_species is Moraxella catarrhalis nali S cipr, levo, moxi, oflo S Moraxella catarrhalis Breakpoints
genus_species is Moraxella catarrhalis eryt S azit, clar, roxi S Moraxella catarrhalis Breakpoints
genus_species is Moraxella catarrhalis eryt I azit, clar, roxi I Moraxella catarrhalis Breakpoints
genus_species is Moraxella catarrhalis eryt R azit, clar, roxi R Moraxella catarrhalis Breakpoints
genus_species is Moraxella catarrhalis tetr S doxy, mino S Moraxella catarrhalis Breakpoints
genus one_of Actinomyces, Bifidobacterium, Clostridium, Cutibacterium, Eggerthella, Eubacterium, Lactobacillus , Propionibacterium peni S ampi, amox, pipe, pita, tica S Anaerobic Gram positives Breakpoints
genus one_of Actinomyces, Bifidobacterium, Clostridium, Cutibacterium, Eggerthella, Eubacterium, Lactobacillus , Propionibacterium peni I ampi, amox, pipe, pita, tica I Anaerobic Gram positives Breakpoints
genus one_of Actinomyces, Bifidobacterium, Clostridium, Cutibacterium, Eggerthella, Eubacterium, Lactobacillus , Propionibacterium peni R ampi, amox, pipe, pita, tica R Anaerobic Gram positives Breakpoints
genus one_of Bacteroides, Bilophila , Fusobacterium, Mobiluncus, Porphyromonas, Prevotella peni S ampi, amox, pipe, pita, tica S Anaerobic Gram negatives Breakpoints
genus one_of Bacteroides, Bilophila , Fusobacterium, Mobiluncus, Porphyromonas, Prevotella peni I ampi, amox, pipe, pita, tica I Anaerobic Gram negatives Breakpoints
genus one_of Bacteroides, Bilophila , Fusobacterium, Mobiluncus, Porphyromonas, Prevotella peni R ampi, amox, pipe, pita, tica R Anaerobic Gram negatives Breakpoints
genus_species is Pasteurella multocida peni S ampi, amox S Pasteurella multocida Breakpoints
genus_species is Pasteurella multocida peni I ampi, amox I Pasteurella multocida Breakpoints
genus_species is Pasteurella multocida peni R ampi, amox R Pasteurella multocida Breakpoints
genus_species is Campylobacter coli eryt S azit, clar S Campylobacter coli Breakpoints
genus_species is Campylobacter coli eryt I azit, clar I Campylobacter coli Breakpoints
genus_species is Campylobacter coli eryt R azit, clar R Campylobacter coli Breakpoints
genus_species is Campylobacter coli tetr S doxy S Campylobacter coli Breakpoints
genus_species is Campylobacter coli tetr I doxy I Campylobacter coli Breakpoints
genus_species is Campylobacter coli tetr R doxy R Campylobacter coli Breakpoints
genus_species is Campylobacter jejuni eryt S azit, clar S Campylobacter jejuni Breakpoints
genus_species is Campylobacter jejuni eryt I azit, clar I Campylobacter jejuni Breakpoints
genus_species is Campylobacter jejuni eryt R azit, clar R Campylobacter jejuni Breakpoints
genus_species is Campylobacter jejuni tetr S doxy S Campylobacter jejuni Breakpoints
genus_species is Campylobacter jejuni tetr I doxy I Campylobacter jejuni Breakpoints
genus_species is Campylobacter jejuni tetr R doxy R Campylobacter jejuni Breakpoints
genus_species is Aerococcus sanguinicola norf S fluoroquinolones S Aerococcus sanguinicola Breakpoints
genus_species is Aerococcus sanguinicola norf I fluoroquinolones I Aerococcus sanguinicola Breakpoints
genus_species is Aerococcus sanguinicola norf R fluoroquinolones R Aerococcus sanguinicola Breakpoints
genus_species is Aerococcus sanguinicola cipr S levo S Aerococcus sanguinicola Breakpoints
genus_species is Aerococcus sanguinicola cipr I levo I Aerococcus sanguinicola Breakpoints
genus_species is Aerococcus sanguinicola cipr R levo R Aerococcus urinae Breakpoints
genus_species is Aerococcus urinae norf S fluoroquinolones S Aerococcus urinae Breakpoints
genus_species is Aerococcus urinae norf I fluoroquinolones I Aerococcus urinae Breakpoints
genus_species is Aerococcus urinae norf R fluoroquinolones R Aerococcus urinae Breakpoints
genus_species is Aerococcus urinae cipr S levo S Aerococcus urinae Breakpoints
genus_species is Aerococcus urinae cipr I levo I Aerococcus urinae Breakpoints
genus_species is Aerococcus urinae cipr R levo R Aerococcus urinae Breakpoints
genus_species is Kingella kingae peni S ampi, amox S Kingella kingae Breakpoints
genus_species is Kingella kingae peni I ampi, amox I Kingella kingae Breakpoints
genus_species is Kingella kingae peni R ampi, amox R Kingella kingae Breakpoints
genus_species is Kingella kingae eryt S azit, clar S Kingella kingae Breakpoints
genus_species is Kingella kingae eryt I azit, clar I Kingella kingae Breakpoints
genus_species is Kingella kingae eryt R azit, clar R Kingella kingae Breakpoints
genus_species is Kingella kingae tetr S doxy S Kingella kingae Breakpoints
family is Enterobacteriaceae peni, glycopeptides, fusi, macrolides, linc, streptogramins, rifa, dapt, line R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
fullname like ^Citrobacter (koseri|amalonaticus|sedlakii|farmeri|rodentium) aminopenicillins, tica R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
fullname like ^Citrobacter (freundii|braakii|murliniae|werkmanii|youngae) aminopenicillins, amcl, czol, cfox R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus_species is Enterobacter cloacae aminopenicillins, amcl, czol, cfox R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus_species is Enterobacter aerogenes aminopenicillins, amcl, czol, cfox R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus_species is Escherichia hermanni aminopenicillins, tica R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus_species is Hafnia alvei aminopenicillins, amcl, czol, cfox R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus is Klebsiella aminopenicillins, tica R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus_species is Morganella morganii aminopenicillins, amcl, czol, tetracyclines, polymyxins, nitr R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus_species is Proteus mirabilis tetracyclines, tige, polymyxins, nitr R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus_species is Proteus penneri aminopenicillins, czol, cfur, tetracyclines, tige, polymyxins, nitr R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus_species is Proteus vulgaris aminopenicillins, czol, cfur, tetracyclines, tige, polymyxins, nitr R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus_species is Providencia rettgeri aminopenicillins, amcl, czol, cfur, tetracyclines, tige, polymyxins, nitr R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus_species is Providencia stuartii aminopenicillins, amcl, czol, cfur, tetracyclines, tige, polymyxins, nitr R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus is Raoultella aminopenicillins, tica R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus_species is Serratia marcescens aminopenicillins, amcl, czol, cfox, cfur, tetracyclines[tetracyclines != na.rm(mino)], polymyxins, nitr R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus_species is Yersinia enterocolitica aminopenicillins, amcl, tica, czol, cfox R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus_species is Yersinia pseudotuberculosis poly, coli R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
genus one_of Achromobacter, Acinetobacter, Alcaligenes, Bordatella, Burkholderia, Elizabethkingia, Flavobacterium, Ochrobactrum, Pseudomonas, Stenotrophomonas peni, cfox, cfur, glycopeptides, fusi, macrolides, linc, streptogramins, rifa, dapt, line R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
genus_species is Acinetobacter baumannii aminopenicillins, amcl, czol, cfot, cftr, aztr, erta, trim, fosf, doxy, tetr R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
genus_species is Acinetobacter pittii aminopenicillins, amcl, czol, cfot, cftr, aztr, erta, trim, fosf, doxy, tetr R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
genus_species is Acinetobacter nosocomialis aminopenicillins, amcl, czol, cfot, cftr, aztr, erta, trim, fosf, doxy, tetr R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
genus_species is Acinetobacter calcoaceticus aminopenicillins, amcl, czol, cfot, cftr, aztr, erta, trim, fosf, doxy, tetr R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
genus_species is Achromobacter xylosoxidans aminopenicillins, czol, cfot, cftr, erta R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
fullname like ^Burkholderia (cepacia|multivorans|cenocepacia|stabilis|vietnamiensis|dolosa|ambifaria|anthina|pyrrocinia|ubonensis) aminopenicillins, amcl, tica, pipe, pita, czol, cfot, cftr, aztr, erta, cipr, chlo, aminoglycosides, trim, fosf, polymyxins R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
genus_species is Elizabethkingia meningoseptica aminopenicillins, amcl, tica, czol, cfot, cftr, cfta, cfep, aztr, erta, imip, mero, polymyxins R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
genus_species is Ochrobactrum anthropi aminopenicillins, amcl, tica, pipe, pita, czol, cfot, cftr, cfta, cfep, aztr, erta R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
genus_species is Pseudomonas aeruginosa aminopenicillins, amcl, czol, cfot, cftr, erta, chlo, kana, neom, trim, trsu, tetracyclines, tige R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
genus_species is Stenotrophomonas maltophilia aminopenicillins, amcl, tica, pipe, pita, czol, cfot, cftr, cfta, aztr, erta, imip, mero, aminoglycosides, trim, fosf, tetr R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
genus one_of Haemophilus, Moraxella, Neisseria, Campylobacter glycopeptides, linc, dapt, line R Table 03: Intrinsic resistance in other Gram-negative bacteria Expert Rules
genus_species is Haemophilus influenzae fusi, streptogramins R Table 03: Intrinsic resistance in other Gram-negative bacteria Expert Rules
genus_species is Moraxella catarrhalis trim R Table 03: Intrinsic resistance in other Gram-negative bacteria Expert Rules
genus is Neisseria trim R Table 03: Intrinsic resistance in other Gram-negative bacteria Expert Rules
genus_species is Campylobacter fetus fusi, streptogramins, trim, nali R Table 03: Intrinsic resistance in other Gram-negative bacteria Expert Rules
genus_species is Campylobacter jejuni fusi, streptogramins, trim R Table 03: Intrinsic resistance in other Gram-negative bacteria Expert Rules
genus_species is Campylobacter coli fusi, streptogramins, trim R Table 03: Intrinsic resistance in other Gram-negative bacteria Expert Rules
gramstain is Gram positive aztr, polymyxins, nali R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Staphylococcus saprophyticus fusi, cfta, fosf, novo R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Staphylococcus cohnii cfta, novo R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Staphylococcus xylosus cfta, novo R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Staphylococcus capitis cfta, fosf R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Staphylococcus aureus cfta R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Staphylococcus epidermidis cfta R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Staphylococcus coagulase-negative cfta R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Staphylococcus hominis cfta R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Staphylococcus haemolyticus cfta R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Staphylococcus intermedius cfta R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Staphylococcus pseudintermedius cfta R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus is Streptococcus fusi, aminoglycosides R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Enterococcus faecalis fusi, cfta, cephalosporins_without_cfta, aminoglycosides, macrolides, clin, qida, trim, trsu R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Enterococcus gallinarum fusi, cfta, cephalosporins_without_cfta, aminoglycosides, macrolides, clin, qida, vanc, trim, trsu R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Enterococcus casseliflavus fusi, cfta, cephalosporins_without_cfta, aminoglycosides, macrolides, clin, qida, vanc, trim, trsu R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Enterococcus faecium fusi, cfta, cephalosporins_without_cfta, aminoglycosides, macrolides, trim, trsu R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus is Corynebacterium fosf R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Listeria monocytogenes cephalosporins R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus is Leuconostoc, Pediococcus glycopeptides R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus is Lactobacillus glycopeptides R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Clostridium ramosum vanc R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species is Clostridium innocuum vanc R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G) peni S aminopenicillins, cephalosporins, carbapenems S Table 08: Interpretive rules for B-lactam agents and Gram-positive cocci Expert Rules
genus is Enterococcus ampi R ureidopenicillins, carbapenems R Table 08: Interpretive rules for B-lactam agents and Gram-positive cocci Expert Rules
genus is Enterococcus amox R ureidopenicillins, carbapenems R Table 08: Interpretive rules for B-lactam agents and Gram-positive cocci Expert Rules
family is Enterobacteriaceae tica, pipe R, S pipe R Table 09: Interpretive rules for B-lactam agents and Gram-negative rods Expert Rules
genus is .* eryt S azit, clar S Table 11: Interpretive rules for macrolides, lincosamides, and streptogramins Expert Rules
genus is .* eryt I azit, clar I Table 11: Interpretive rules for macrolides, lincosamides, and streptogramins Expert Rules
genus is .* eryt R azit, clar R Table 11: Interpretive rules for macrolides, lincosamides, and streptogramins Expert Rules
genus is Staphylococcus tobr R kana, amik R Table 12: Interpretive rules for aminoglycosides Expert Rules
genus is Staphylococcus gent R aminoglycosides R Table 12: Interpretive rules for aminoglycosides Expert Rules
family is Enterobacteriaceae gent, tobr I, S gent R Table 12: Interpretive rules for aminoglycosides Expert Rules
family is Enterobacteriaceae gent, tobr R, I tobr R Table 12: Interpretive rules for aminoglycosides Expert Rules
genus is Staphylococcus moxi R fluoroquinolones R Table 13: Interpretive rules for quinolones Expert Rules
genus_species is Streptococcus pneumoniae moxi R fluoroquinolones R Table 13: Interpretive rules for quinolones Expert Rules
family is Enterobacteriaceae cipr R fluoroquinolones R Table 13: Interpretive rules for quinolones Expert Rules
genus_species is Neisseria gonorrhoeae cipr R fluoroquinolones R Table 13: Interpretive rules for quinolones Expert Rules
genus is .* amcl R ampi, amox R Non-EUCAST: ampicillin = R where amoxicillin/clav acid = R Other rules
genus is .* pita R pipe R Non-EUCAST: piperacillin = R where piperacillin/tazobactam = R Other rules
genus is .* trsu R trim R Non-EUCAST: trimethoprim = R where trimethoprim/sulfa = R Other rules
genus is .* ampi S amcl S Non-EUCAST: amoxicillin/clav acid = S where ampicillin = S Other rules
genus is .* amox S amcl S Non-EUCAST: amoxicillin/clav acid = S where ampicillin = S Other rules
genus is .* pipe S pita S Non-EUCAST: piperacillin/tazobactam = S where piperacillin = S Other rules
genus is .* trim S trsu S Non-EUCAST: trimethoprim/sulfa = S where trimethoprim = S Other rules
1 if_mo_property like_is_one_of this_value and_these_antibiotics have_these_values then_change_these_antibiotics to_value reference.rule reference.rule_group
2 order is Enterobacteriales ampi S amox S Enterobacteriales (Order) Breakpoints
3 order is Enterobacteriales ampi I amox I Enterobacteriales (Order) Breakpoints
4 order is Enterobacteriales ampi R amox R Enterobacteriales (Order) Breakpoints
5 genus is Staphylococcus peni, cfox S ampi, amox, pipe, tica S Staphylococcus Breakpoints
6 genus is Staphylococcus peni, cfox R, S oxac, clox S Staphylococcus Breakpoints
7 genus is Staphylococcus cfox R all_betalactams R Staphylococcus Breakpoints
8 genus_species is Staphylococcus saprophyticus ampi S amox, amcl, pipe, pita S Staphylococcus Breakpoints
9 genus is Staphylococcus cfox S carbapenems, cephalosporins_without_cfta S Staphylococcus Breakpoints
10 genus is Staphylococcus cfox I carbapenems, cephalosporins_without_cfta I Staphylococcus Breakpoints
11 genus is Staphylococcus cfox R carbapenems, cephalosporins_without_cfta R Staphylococcus Breakpoints
12 genus is Staphylococcus norf S cipr, levo, moxi, oflo S Staphylococcus Breakpoints
13 genus is Staphylococcus eryt S azit, clar, roxi S Staphylococcus Breakpoints
14 genus is Staphylococcus eryt I azit, clar, roxi I Staphylococcus Breakpoints
15 genus is Staphylococcus eryt R azit, clar, roxi R Staphylococcus Breakpoints
16 genus is Staphylococcus tetr S doxy, mino S Staphylococcus Breakpoints
17 genus_species is Enterococcus faecium ampi R all_betalactams R Enterococcus Breakpoints
18 genus is Enterococcus ampi S amox, amcl, pipe, pita S Enterococcus Breakpoints
19 genus is Enterococcus ampi I amox, amcl, pipe, pita I Enterococcus Breakpoints
20 genus is Enterococcus ampi R amox, amcl, pipe, pita R Enterococcus Breakpoints
21 genus is Enterococcus norf S cipr, levo S Enterococcus Breakpoints
22 genus is Enterococcus norf I cipr, levo I Enterococcus Breakpoints
23 genus is Enterococcus norf R cipr, levo R Enterococcus Breakpoints
24 genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ peni S aminopenicillins, ureidopenicillins, cephalosporins, carbapenems, clox, amcl S Streptococcus groups A, B, C, G Breakpoints
25 genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ peni I aminopenicillins, ureidopenicillins, cephalosporins, carbapenems, clox, amcl I Streptococcus groups A, B, C, G Breakpoints
26 genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ peni R aminopenicillins, ureidopenicillins, cephalosporins, carbapenems, clox, amcl R Streptococcus groups A, B, C, G Breakpoints
27 genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ norf S levo, moxi S Streptococcus groups A, B, C, G Breakpoints
28 genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ eryt S azit, clar, roxi S Streptococcus groups A, B, C, G Breakpoints
29 genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ eryt I azit, clar, roxi I Streptococcus groups A, B, C, G Breakpoints
30 genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ eryt R azit, clar, roxi R Streptococcus groups A, B, C, G Breakpoints
31 genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G)$ tetr S doxy, mino S Streptococcus groups A, B, C, G Breakpoints
32 genus_species is Streptococcus pneumoniae peni S ampi, amox, amcl, pipe, pita S Streptococcus pneumoniae Breakpoints
33 genus_species is Streptococcus pneumoniae ampi S amox, amcl, pipe, pita S Streptococcus pneumoniae Breakpoints
34 genus_species is Streptococcus pneumoniae ampi I amox, amcl, pipe, pita I Streptococcus pneumoniae Breakpoints
35 genus_species is Streptococcus pneumoniae ampi R amox, amcl, pipe, pita R Streptococcus pneumoniae Breakpoints
36 genus_species is Streptococcus pneumoniae norf S levo, moxi S Streptococcus pneumoniae Breakpoints
37 genus_species is Streptococcus pneumoniae eryt S azit, clar, roxi S Streptococcus pneumoniae Breakpoints
38 genus_species is Streptococcus pneumoniae eryt I azit, clar, roxi I Streptococcus pneumoniae Breakpoints
39 genus_species is Streptococcus pneumoniae eryt R azit, clar, roxi R Streptococcus pneumoniae Breakpoints
40 genus_species is Streptococcus pneumoniae tetr S doxy, mino S Streptococcus pneumoniae Breakpoints
41 genus_species like ^Streptococcus (australis|bovis|constellatus|cristatus|gallolyticus|gordonii|infantarius|infantis|mitis|mutans|oligofermentans|oralis|peroris|pseudopneumoniae|salivarius|sinensis|sobrinus|thermophilus|vestibularis|anginosus|equinus|intermedius|parasanguinis|sanguinis)$ peni S ampi, amox, amcl, pipe, pita S Viridans group streptococci Breakpoints
42 genus_species like ^Streptococcus (australis|bovis|constellatus|cristatus|gallolyticus|gordonii|infantarius|infantis|mitis|mutans|oligofermentans|oralis|peroris|pseudopneumoniae|salivarius|sinensis|sobrinus|thermophilus|vestibularis|anginosus|equinus|intermedius|parasanguinis|sanguinis)$ ampi S amox, amcl, pipe, pita S Viridans group streptococci Breakpoints
43 genus_species like ^Streptococcus (australis|bovis|constellatus|cristatus|gallolyticus|gordonii|infantarius|infantis|mitis|mutans|oligofermentans|oralis|peroris|pseudopneumoniae|salivarius|sinensis|sobrinus|thermophilus|vestibularis|anginosus|equinus|intermedius|parasanguinis|sanguinis)$ ampi I amox, amcl, pipe, pita I Viridans group streptococci Breakpoints
44 genus_species like ^Streptococcus (australis|bovis|constellatus|cristatus|gallolyticus|gordonii|infantarius|infantis|mitis|mutans|oligofermentans|oralis|peroris|pseudopneumoniae|salivarius|sinensis|sobrinus|thermophilus|vestibularis|anginosus|equinus|intermedius|parasanguinis|sanguinis)$ ampi R amox, amcl, pipe, pita R Viridans group streptococci Breakpoints
45 genus_species is Haemophilus influenzae ampi S amox, pipe S Haemophilus influenzae Breakpoints
46 genus_species is ^Haemophilus influenzae ampi I amox, pipe I Haemophilus influenzae Breakpoints
47 genus_species is Haemophilus influenzae ampi R amox, pipe R Haemophilus influenzae Breakpoints
48 genus_species is Haemophilus influenzae peni S ampi, amox, amcl, pipe, pita S Haemophilus influenzae Breakpoints
49 genus_species is Haemophilus influenzae amcl S pita S Haemophilus influenzae Breakpoints
50 genus_species is Haemophilus influenzae amcl I pita I Haemophilus influenzae Breakpoints
51 genus_species is Haemophilus influenzae amcl R pita R Haemophilus influenzae Breakpoints
52 genus_species is Haemophilus influenzae nali S cipr, levo, moxi, oflo S Haemophilus influenzae Breakpoints
53 genus_species is Haemophilus influenzae tetr S doxy, mino S Haemophilus influenzae Breakpoints
54 genus_species is Moraxella catarrhalis amcl S pita S Moraxella catarrhalis Breakpoints
55 genus_species is Moraxella catarrhalis amcl I pita I Moraxella catarrhalis Breakpoints
56 genus_species is Moraxella catarrhalis amcl R pita R Moraxella catarrhalis Breakpoints
57 genus_species is Moraxella catarrhalis nali S cipr, levo, moxi, oflo S Moraxella catarrhalis Breakpoints
58 genus_species is Moraxella catarrhalis eryt S azit, clar, roxi S Moraxella catarrhalis Breakpoints
59 genus_species is Moraxella catarrhalis eryt I azit, clar, roxi I Moraxella catarrhalis Breakpoints
60 genus_species is Moraxella catarrhalis eryt R azit, clar, roxi R Moraxella catarrhalis Breakpoints
61 genus_species is Moraxella catarrhalis tetr S doxy, mino S Moraxella catarrhalis Breakpoints
62 genus one_of Actinomyces, Bifidobacterium, Clostridium, Cutibacterium, Eggerthella, Eubacterium, Lactobacillus , Propionibacterium peni S ampi, amox, pipe, pita, tica S Anaerobic Gram positives Breakpoints
63 genus one_of Actinomyces, Bifidobacterium, Clostridium, Cutibacterium, Eggerthella, Eubacterium, Lactobacillus , Propionibacterium peni I ampi, amox, pipe, pita, tica I Anaerobic Gram positives Breakpoints
64 genus one_of Actinomyces, Bifidobacterium, Clostridium, Cutibacterium, Eggerthella, Eubacterium, Lactobacillus , Propionibacterium peni R ampi, amox, pipe, pita, tica R Anaerobic Gram positives Breakpoints
65 genus one_of Bacteroides, Bilophila , Fusobacterium, Mobiluncus, Porphyromonas, Prevotella peni S ampi, amox, pipe, pita, tica S Anaerobic Gram negatives Breakpoints
66 genus one_of Bacteroides, Bilophila , Fusobacterium, Mobiluncus, Porphyromonas, Prevotella peni I ampi, amox, pipe, pita, tica I Anaerobic Gram negatives Breakpoints
67 genus one_of Bacteroides, Bilophila , Fusobacterium, Mobiluncus, Porphyromonas, Prevotella peni R ampi, amox, pipe, pita, tica R Anaerobic Gram negatives Breakpoints
68 genus_species is Pasteurella multocida peni S ampi, amox S Pasteurella multocida Breakpoints
69 genus_species is Pasteurella multocida peni I ampi, amox I Pasteurella multocida Breakpoints
70 genus_species is Pasteurella multocida peni R ampi, amox R Pasteurella multocida Breakpoints
71 genus_species is Campylobacter coli eryt S azit, clar S Campylobacter coli Breakpoints
72 genus_species is Campylobacter coli eryt I azit, clar I Campylobacter coli Breakpoints
73 genus_species is Campylobacter coli eryt R azit, clar R Campylobacter coli Breakpoints
74 genus_species is Campylobacter coli tetr S doxy S Campylobacter coli Breakpoints
75 genus_species is Campylobacter coli tetr I doxy I Campylobacter coli Breakpoints
76 genus_species is Campylobacter coli tetr R doxy R Campylobacter coli Breakpoints
77 genus_species is Campylobacter jejuni eryt S azit, clar S Campylobacter jejuni Breakpoints
78 genus_species is Campylobacter jejuni eryt I azit, clar I Campylobacter jejuni Breakpoints
79 genus_species is Campylobacter jejuni eryt R azit, clar R Campylobacter jejuni Breakpoints
80 genus_species is Campylobacter jejuni tetr S doxy S Campylobacter jejuni Breakpoints
81 genus_species is Campylobacter jejuni tetr I doxy I Campylobacter jejuni Breakpoints
82 genus_species is Campylobacter jejuni tetr R doxy R Campylobacter jejuni Breakpoints
83 genus_species is Aerococcus sanguinicola norf S fluoroquinolones S Aerococcus sanguinicola Breakpoints
84 genus_species is Aerococcus sanguinicola norf I fluoroquinolones I Aerococcus sanguinicola Breakpoints
85 genus_species is Aerococcus sanguinicola norf R fluoroquinolones R Aerococcus sanguinicola Breakpoints
86 genus_species is Aerococcus sanguinicola cipr S levo S Aerococcus sanguinicola Breakpoints
87 genus_species is Aerococcus sanguinicola cipr I levo I Aerococcus sanguinicola Breakpoints
88 genus_species is Aerococcus sanguinicola cipr R levo R Aerococcus urinae Breakpoints
89 genus_species is Aerococcus urinae norf S fluoroquinolones S Aerococcus urinae Breakpoints
90 genus_species is Aerococcus urinae norf I fluoroquinolones I Aerococcus urinae Breakpoints
91 genus_species is Aerococcus urinae norf R fluoroquinolones R Aerococcus urinae Breakpoints
92 genus_species is Aerococcus urinae cipr S levo S Aerococcus urinae Breakpoints
93 genus_species is Aerococcus urinae cipr I levo I Aerococcus urinae Breakpoints
94 genus_species is Aerococcus urinae cipr R levo R Aerococcus urinae Breakpoints
95 genus_species is Kingella kingae peni S ampi, amox S Kingella kingae Breakpoints
96 genus_species is Kingella kingae peni I ampi, amox I Kingella kingae Breakpoints
97 genus_species is Kingella kingae peni R ampi, amox R Kingella kingae Breakpoints
98 genus_species is Kingella kingae eryt S azit, clar S Kingella kingae Breakpoints
99 genus_species is Kingella kingae eryt I azit, clar I Kingella kingae Breakpoints
100 genus_species is Kingella kingae eryt R azit, clar R Kingella kingae Breakpoints
101 genus_species is Kingella kingae tetr S doxy S Kingella kingae Breakpoints
102 family is Enterobacteriaceae peni, glycopeptides, fusi, macrolides, linc, streptogramins, rifa, dapt, line R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
103 fullname like ^Citrobacter (koseri|amalonaticus|sedlakii|farmeri|rodentium) aminopenicillins, tica R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
104 fullname like ^Citrobacter (freundii|braakii|murliniae|werkmanii|youngae) aminopenicillins, amcl, czol, cfox R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
105 genus_species is Enterobacter cloacae aminopenicillins, amcl, czol, cfox R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
106 genus_species is Enterobacter aerogenes aminopenicillins, amcl, czol, cfox R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
107 genus_species is Escherichia hermanni aminopenicillins, tica R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
108 genus_species is Hafnia alvei aminopenicillins, amcl, czol, cfox R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
109 genus is Klebsiella aminopenicillins, tica R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
110 genus_species is Morganella morganii aminopenicillins, amcl, czol, tetracyclines, polymyxins, nitr R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
111 genus_species is Proteus mirabilis tetracyclines, tige, polymyxins, nitr R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
112 genus_species is Proteus penneri aminopenicillins, czol, cfur, tetracyclines, tige, polymyxins, nitr R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
113 genus_species is Proteus vulgaris aminopenicillins, czol, cfur, tetracyclines, tige, polymyxins, nitr R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
114 genus_species is Providencia rettgeri aminopenicillins, amcl, czol, cfur, tetracyclines, tige, polymyxins, nitr R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
115 genus_species is Providencia stuartii aminopenicillins, amcl, czol, cfur, tetracyclines, tige, polymyxins, nitr R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
116 genus is Raoultella aminopenicillins, tica R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
117 genus_species is Serratia marcescens aminopenicillins, amcl, czol, cfox, cfur, tetracyclines[tetracyclines != na.rm(mino)], polymyxins, nitr R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
118 genus_species is Yersinia enterocolitica aminopenicillins, amcl, tica, czol, cfox R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
119 genus_species is Yersinia pseudotuberculosis poly, coli R Table 01: Intrinsic resistance in Enterobacteriaceae Expert Rules
120 genus one_of Achromobacter, Acinetobacter, Alcaligenes, Bordatella, Burkholderia, Elizabethkingia, Flavobacterium, Ochrobactrum, Pseudomonas, Stenotrophomonas peni, cfox, cfur, glycopeptides, fusi, macrolides, linc, streptogramins, rifa, dapt, line R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
121 genus_species is Acinetobacter baumannii aminopenicillins, amcl, czol, cfot, cftr, aztr, erta, trim, fosf, doxy, tetr R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
122 genus_species is Acinetobacter pittii aminopenicillins, amcl, czol, cfot, cftr, aztr, erta, trim, fosf, doxy, tetr R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
123 genus_species is Acinetobacter nosocomialis aminopenicillins, amcl, czol, cfot, cftr, aztr, erta, trim, fosf, doxy, tetr R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
124 genus_species is Acinetobacter calcoaceticus aminopenicillins, amcl, czol, cfot, cftr, aztr, erta, trim, fosf, doxy, tetr R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
125 genus_species is Achromobacter xylosoxidans aminopenicillins, czol, cfot, cftr, erta R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
126 fullname like ^Burkholderia (cepacia|multivorans|cenocepacia|stabilis|vietnamiensis|dolosa|ambifaria|anthina|pyrrocinia|ubonensis) aminopenicillins, amcl, tica, pipe, pita, czol, cfot, cftr, aztr, erta, cipr, chlo, aminoglycosides, trim, fosf, polymyxins R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
127 genus_species is Elizabethkingia meningoseptica aminopenicillins, amcl, tica, czol, cfot, cftr, cfta, cfep, aztr, erta, imip, mero, polymyxins R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
128 genus_species is Ochrobactrum anthropi aminopenicillins, amcl, tica, pipe, pita, czol, cfot, cftr, cfta, cfep, aztr, erta R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
129 genus_species is Pseudomonas aeruginosa aminopenicillins, amcl, czol, cfot, cftr, erta, chlo, kana, neom, trim, trsu, tetracyclines, tige R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
130 genus_species is Stenotrophomonas maltophilia aminopenicillins, amcl, tica, pipe, pita, czol, cfot, cftr, cfta, aztr, erta, imip, mero, aminoglycosides, trim, fosf, tetr R Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria Expert Rules
131 genus one_of Haemophilus, Moraxella, Neisseria, Campylobacter glycopeptides, linc, dapt, line R Table 03: Intrinsic resistance in other Gram-negative bacteria Expert Rules
132 genus_species is Haemophilus influenzae fusi, streptogramins R Table 03: Intrinsic resistance in other Gram-negative bacteria Expert Rules
133 genus_species is Moraxella catarrhalis trim R Table 03: Intrinsic resistance in other Gram-negative bacteria Expert Rules
134 genus is Neisseria trim R Table 03: Intrinsic resistance in other Gram-negative bacteria Expert Rules
135 genus_species is Campylobacter fetus fusi, streptogramins, trim, nali R Table 03: Intrinsic resistance in other Gram-negative bacteria Expert Rules
136 genus_species is Campylobacter jejuni fusi, streptogramins, trim R Table 03: Intrinsic resistance in other Gram-negative bacteria Expert Rules
137 genus_species is Campylobacter coli fusi, streptogramins, trim R Table 03: Intrinsic resistance in other Gram-negative bacteria Expert Rules
138 gramstain is Gram positive aztr, polymyxins, nali R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
139 genus_species is Staphylococcus saprophyticus fusi, cfta, fosf, novo R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
140 genus_species is Staphylococcus cohnii cfta, novo R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
141 genus_species is Staphylococcus xylosus cfta, novo R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
142 genus_species is Staphylococcus capitis cfta, fosf R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
143 genus_species is Staphylococcus aureus cfta R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
144 genus_species is Staphylococcus epidermidis cfta R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
145 genus_species is Staphylococcus coagulase-negative cfta R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
146 genus_species is Staphylococcus hominis cfta R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
147 genus_species is Staphylococcus haemolyticus cfta R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
148 genus_species is Staphylococcus intermedius cfta R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
149 genus_species is Staphylococcus pseudintermedius cfta R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
150 genus is Streptococcus fusi, aminoglycosides R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
151 genus_species is Enterococcus faecalis fusi, cfta, cephalosporins_without_cfta, aminoglycosides, macrolides, clin, qida, trim, trsu R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
152 genus_species is Enterococcus gallinarum fusi, cfta, cephalosporins_without_cfta, aminoglycosides, macrolides, clin, qida, vanc, trim, trsu R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
153 genus_species is Enterococcus casseliflavus fusi, cfta, cephalosporins_without_cfta, aminoglycosides, macrolides, clin, qida, vanc, trim, trsu R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
154 genus_species is Enterococcus faecium fusi, cfta, cephalosporins_without_cfta, aminoglycosides, macrolides, trim, trsu R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
155 genus is Corynebacterium fosf R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
156 genus_species is Listeria monocytogenes cephalosporins R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
157 genus is Leuconostoc, Pediococcus glycopeptides R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
158 genus is Lactobacillus glycopeptides R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
159 genus_species is Clostridium ramosum vanc R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
160 genus_species is Clostridium innocuum vanc R Table 04: Intrinsic resistance in Gram-positive bacteria Expert Rules
161 genus_species like ^Streptococcus (pyogenes|agalactiae|dysgalactiae|group A|group B|group C|group G) peni S aminopenicillins, cephalosporins, carbapenems S Table 08: Interpretive rules for B-lactam agents and Gram-positive cocci Expert Rules
162 genus is Enterococcus ampi R ureidopenicillins, carbapenems R Table 08: Interpretive rules for B-lactam agents and Gram-positive cocci Expert Rules
163 genus is Enterococcus amox R ureidopenicillins, carbapenems R Table 08: Interpretive rules for B-lactam agents and Gram-positive cocci Expert Rules
164 family is Enterobacteriaceae tica, pipe R, S pipe R Table 09: Interpretive rules for B-lactam agents and Gram-negative rods Expert Rules
165 genus is .* eryt S azit, clar S Table 11: Interpretive rules for macrolides, lincosamides, and streptogramins Expert Rules
166 genus is .* eryt I azit, clar I Table 11: Interpretive rules for macrolides, lincosamides, and streptogramins Expert Rules
167 genus is .* eryt R azit, clar R Table 11: Interpretive rules for macrolides, lincosamides, and streptogramins Expert Rules
168 genus is Staphylococcus tobr R kana, amik R Table 12: Interpretive rules for aminoglycosides Expert Rules
169 genus is Staphylococcus gent R aminoglycosides R Table 12: Interpretive rules for aminoglycosides Expert Rules
170 family is Enterobacteriaceae gent, tobr I, S gent R Table 12: Interpretive rules for aminoglycosides Expert Rules
171 family is Enterobacteriaceae gent, tobr R, I tobr R Table 12: Interpretive rules for aminoglycosides Expert Rules
172 genus is Staphylococcus moxi R fluoroquinolones R Table 13: Interpretive rules for quinolones Expert Rules
173 genus_species is Streptococcus pneumoniae moxi R fluoroquinolones R Table 13: Interpretive rules for quinolones Expert Rules
174 family is Enterobacteriaceae cipr R fluoroquinolones R Table 13: Interpretive rules for quinolones Expert Rules
175 genus_species is Neisseria gonorrhoeae cipr R fluoroquinolones R Table 13: Interpretive rules for quinolones Expert Rules
176 genus is .* amcl R ampi, amox R Non-EUCAST: ampicillin = R where amoxicillin/clav acid = R Other rules
177 genus is .* pita R pipe R Non-EUCAST: piperacillin = R where piperacillin/tazobactam = R Other rules
178 genus is .* trsu R trim R Non-EUCAST: trimethoprim = R where trimethoprim/sulfa = R Other rules
179 genus is .* ampi S amcl S Non-EUCAST: amoxicillin/clav acid = S where ampicillin = S Other rules
180 genus is .* amox S amcl S Non-EUCAST: amoxicillin/clav acid = S where ampicillin = S Other rules
181 genus is .* pipe S pita S Non-EUCAST: piperacillin/tazobactam = S where piperacillin = S Other rules
182 genus is .* trim S trsu S Non-EUCAST: trimethoprim/sulfa = S where trimethoprim = S Other rules

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inst/rstudio/addins.dcf
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@ -16,7 +16,7 @@
# This R package was created for academic research and was publicly #
# released in the hope that it will be useful, but it comes WITHOUT #
# ANY WARRANTY OR LIABILITY. #
# Visit our website for more info: https://msberends.gitab.io/AMR. #
# Visit our website for more info: https://msberends.gitlab.io/AMR. #
# ==================================================================== #
Name: Insert %in%