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EUCAST update, as.mo bugfix for empty vlaues
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@ -289,8 +289,8 @@
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<a href='https://doi.org/10.1111/j.1469-0691.2011.03703.x'>https://doi.org/10.1111/j.1469-0691.2011.03703.x</a></p></li>
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<li><p>EUCAST Expert Rules, Intrinsic Resistance and Exceptional Phenotypes Tables. Version 3.1, 2016. <br />
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<a href='http://www.eucast.org/fileadmin/src/media/PDFs/EUCAST_files/Expert_Rules/Expert_rules_intrinsic_exceptional_V3.1.pdf'>http://www.eucast.org/fileadmin/src/media/PDFs/EUCAST_files/Expert_Rules/Expert_rules_intrinsic_exceptional_V3.1.pdf</a></p></li>
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<li><p>EUCAST Breakpoint tables for interpretation of MICs and zone diameters. Version 8.1, 2018. <br />
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<a href='http://www.eucast.org/fileadmin/src/media/PDFs/EUCAST_files/Breakpoint_tables/v_8.1_Breakpoint_Tables.xlsx'>http://www.eucast.org/fileadmin/src/media/PDFs/EUCAST_files/Breakpoint_tables/v_8.1_Breakpoint_Tables.xlsx</a></p></li>
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<li><p>EUCAST Breakpoint tables for interpretation of MICs and zone diameters. Version 9.0, 2019. <br />
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<a href='http://www.eucast.org/fileadmin/src/media/PDFs/EUCAST_files/Breakpoint_tables/v_9.0_Breakpoint_Tables.xlsx'>http://www.eucast.org/fileadmin/src/media/PDFs/EUCAST_files/Breakpoint_tables/v_9.0_Breakpoint_Tables.xlsx</a></p></li>
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</ul>
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<h2 class="hasAnchor" id="value"><a class="anchor" href="#value"></a>Value</h2>
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@ -302,68 +302,68 @@
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<p>To define antibiotics column names, leave as it is to determine it automatically with <code><a href='guess_ab.html'>guess_ab</a></code> or input a text (case-insensitive) or use <code>NULL</code> to skip a column (e.g. <code>tica = NULL</code>). Non-existing columns will anyway be skipped with a warning.</p>
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<p>Abbrevations of the column containing antibiotics in the form: <strong>abbreviation</strong>: generic name (<em>ATC code</em>)</p>
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<p><strong>amcl</strong>: amoxicillin+clavulanic acid (<em>J01CR02</em>),
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<strong>amik</strong>: amikacin (<em>J01GB06</em>),
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<strong>amox</strong>: amoxicillin (<em>J01CA04</em>),
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<strong>ampi</strong>: ampicillin (<em>J01CA01</em>),
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<strong>azit</strong>: azithromycin (<em>J01FA10</em>),
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<strong>azlo</strong>: azlocillin (<em>J01CA09</em>),
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<strong>aztr</strong>: aztreonam (<em>J01DF01</em>),
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<strong>cefa</strong>: cefaloridine (<em>J01DB02</em>),
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<strong>cfep</strong>: cefepime (<em>J01DE01</em>),
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<strong>cfot</strong>: cefotaxime (<em>J01DD01</em>),
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<strong>cfox</strong>: cefoxitin (<em>J01DC01</em>),
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<strong>cfra</strong>: cefradine (<em>J01DB09</em>),
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<strong>cfta</strong>: ceftazidime (<em>J01DD02</em>),
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<strong>cftr</strong>: ceftriaxone (<em>J01DD04</em>),
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<strong>cfur</strong>: cefuroxime (<em>J01DC02</em>),
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<strong>chlo</strong>: chloramphenicol (<em>J01BA01</em>),
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<strong>cipr</strong>: ciprofloxacin (<em>J01MA02</em>),
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<strong>clar</strong>: clarithromycin (<em>J01FA09</em>),
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<strong>clin</strong>: clindamycin (<em>J01FF01</em>),
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<strong>clox</strong>: flucloxacillin (<em>J01CF05</em>),
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<strong>coli</strong>: colistin (<em>J01XB01</em>),
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<strong>czol</strong>: cefazolin (<em>J01DB04</em>),
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<strong>dapt</strong>: daptomycin (<em>J01XX09</em>),
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<strong>doxy</strong>: doxycycline (<em>J01AA02</em>),
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<strong>erta</strong>: ertapenem (<em>J01DH03</em>),
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<strong>eryt</strong>: erythromycin (<em>J01FA01</em>),
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<strong>fosf</strong>: fosfomycin (<em>J01XX01</em>),
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<strong>fusi</strong>: fusidic acid (<em>J01XC01</em>),
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<strong>gent</strong>: gentamicin (<em>J01GB03</em>),
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<strong>imip</strong>: imipenem (<em>J01DH51</em>),
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<strong>kana</strong>: kanamycin (<em>J01GB04</em>),
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<strong>levo</strong>: levofloxacin (<em>J01MA12</em>),
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<strong>linc</strong>: lincomycin (<em>J01FF02</em>),
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<strong>line</strong>: linezolid (<em>J01XX08</em>),
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<strong>mero</strong>: meropenem (<em>J01DH02</em>),
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<strong>mezl</strong>: mezlocillin (<em>J01CA10</em>),
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<strong>mino</strong>: minocycline (<em>J01AA08</em>),
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<strong>moxi</strong>: moxifloxacin (<em>J01MA14</em>),
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<strong>nali</strong>: nalidixic acid (<em>J01MB02</em>),
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<strong>neom</strong>: neomycin (<em>J01GB05</em>),
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<strong>neti</strong>: netilmicin (<em>J01GB07</em>),
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<strong>nitr</strong>: nitrofurantoin (<em>J01XE01</em>),
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<strong>norf</strong>: norfloxacin (<em>J01MA06</em>),
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<strong>novo</strong>: novobiocin (an ATCvet code: <em>QJ01XX95</em>),
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<strong>oflo</strong>: ofloxacin (<em>J01MA01</em>),
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<strong>peni</strong>: penicillin (<em>J01RA01</em>),
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<strong>pipe</strong>: piperacillin (<em>J01CA12</em>),
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<strong>pita</strong>: piperacillin+tazobactam (<em>J01CR05</em>),
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<strong>poly</strong>: polymyxin B (<em>J01XB02</em>),
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<strong>pris</strong>: pristinamycin (<em>J01FG01</em>),
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<strong>qida</strong>: quinupristin/dalfopristin (<em>J01FG02</em>),
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<strong>rifa</strong>: rifampicin (<em>J04AB02</em>),
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<strong>roxi</strong>: roxithromycin (<em>J01FA06</em>),
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<strong>siso</strong>: sisomicin (<em>J01GB08</em>),
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<strong>teic</strong>: teicoplanin (<em>J01XA02</em>),
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<strong>tetr</strong>: tetracycline (<em>J01AA07</em>),
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<strong>tica</strong>: ticarcillin (<em>J01CA13</em>),
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<strong>tige</strong>: tigecycline (<em>J01AA12</em>),
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<strong>tobr</strong>: tobramycin (<em>J01GB01</em>),
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<strong>trim</strong>: trimethoprim (<em>J01EA01</em>),
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<strong>trsu</strong>: sulfamethoxazole and trimethoprim (<em>J01EE01</em>),
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<strong>vanc</strong>: vancomycin (<em>J01XA01</em>).</p>
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<p><strong>amcl</strong>: amoxicillin+clavulanic acid (<a href='https://www.whocc.no/atc_ddd_index/?code=J01CR02'>J01CR02</a>),
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<strong>amik</strong>: amikacin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01GB06'>J01GB06</a>),
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<strong>amox</strong>: amoxicillin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01CA04'>J01CA04</a>),
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<strong>ampi</strong>: ampicillin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01CA01'>J01CA01</a>),
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<strong>azit</strong>: azithromycin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01FA10'>J01FA10</a>),
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<strong>azlo</strong>: azlocillin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01CA09'>J01CA09</a>),
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<strong>aztr</strong>: aztreonam (<a href='https://www.whocc.no/atc_ddd_index/?code=J01DF01'>J01DF01</a>),
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<strong>cefa</strong>: cefaloridine (<a href='https://www.whocc.no/atc_ddd_index/?code=J01DB02'>J01DB02</a>),
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<strong>cfep</strong>: cefepime (<a href='https://www.whocc.no/atc_ddd_index/?code=J01DE01'>J01DE01</a>),
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<strong>cfot</strong>: cefotaxime (<a href='https://www.whocc.no/atc_ddd_index/?code=J01DD01'>J01DD01</a>),
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<strong>cfox</strong>: cefoxitin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01DC01'>J01DC01</a>),
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<strong>cfra</strong>: cefradine (<a href='https://www.whocc.no/atc_ddd_index/?code=J01DB09'>J01DB09</a>),
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<strong>cfta</strong>: ceftazidime (<a href='https://www.whocc.no/atc_ddd_index/?code=J01DD02'>J01DD02</a>),
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<strong>cftr</strong>: ceftriaxone (<a href='https://www.whocc.no/atc_ddd_index/?code=J01DD04'>J01DD04</a>),
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<strong>cfur</strong>: cefuroxime (<a href='https://www.whocc.no/atc_ddd_index/?code=J01DC02'>J01DC02</a>),
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<strong>chlo</strong>: chloramphenicol (<a href='https://www.whocc.no/atc_ddd_index/?code=J01BA01'>J01BA01</a>),
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<strong>cipr</strong>: ciprofloxacin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01MA02'>J01MA02</a>),
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<strong>clar</strong>: clarithromycin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01FA09'>J01FA09</a>),
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<strong>clin</strong>: clindamycin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01FF01'>J01FF01</a>),
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<strong>clox</strong>: flucloxacillin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01CF05'>J01CF05</a>),
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<strong>coli</strong>: colistin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01XB01'>J01XB01</a>),
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<strong>czol</strong>: cefazolin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01DB04'>J01DB04</a>),
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<strong>dapt</strong>: daptomycin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01XX09'>J01XX09</a>),
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<strong>doxy</strong>: doxycycline (<a href='https://www.whocc.no/atc_ddd_index/?code=J01AA02'>J01AA02</a>),
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<strong>erta</strong>: ertapenem (<a href='https://www.whocc.no/atc_ddd_index/?code=J01DH03'>J01DH03</a>),
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<strong>eryt</strong>: erythromycin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01FA01'>J01FA01</a>),
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<strong>fosf</strong>: fosfomycin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01XX01'>J01XX01</a>),
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<strong>fusi</strong>: fusidic acid (<a href='https://www.whocc.no/atc_ddd_index/?code=J01XC01'>J01XC01</a>),
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<strong>gent</strong>: gentamicin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01GB03'>J01GB03</a>),
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<strong>imip</strong>: imipenem (<a href='https://www.whocc.no/atc_ddd_index/?code=J01DH51'>J01DH51</a>),
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<strong>kana</strong>: kanamycin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01GB04'>J01GB04</a>),
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<strong>levo</strong>: levofloxacin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01MA12'>J01MA12</a>),
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<strong>linc</strong>: lincomycin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01FF02'>J01FF02</a>),
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<strong>line</strong>: linezolid (<a href='https://www.whocc.no/atc_ddd_index/?code=J01XX08'>J01XX08</a>),
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<strong>mero</strong>: meropenem (<a href='https://www.whocc.no/atc_ddd_index/?code=J01DH02'>J01DH02</a>),
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<strong>mezl</strong>: mezlocillin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01CA10'>J01CA10</a>),
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<strong>mino</strong>: minocycline (<a href='https://www.whocc.no/atc_ddd_index/?code=J01AA08'>J01AA08</a>),
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<strong>moxi</strong>: moxifloxacin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01MA14'>J01MA14</a>),
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<strong>nali</strong>: nalidixic acid (<a href='https://www.whocc.no/atc_ddd_index/?code=J01MB02'>J01MB02</a>),
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<strong>neom</strong>: neomycin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01GB05'>J01GB05</a>),
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<strong>neti</strong>: netilmicin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01GB07'>J01GB07</a>),
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<strong>nitr</strong>: nitrofurantoin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01XE01'>J01XE01</a>),
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<strong>norf</strong>: norfloxacin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01MA06'>J01MA06</a>),
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<strong>novo</strong>: novobiocin (an ATCvet code: <a href='https://www.whocc.no/atc_ddd_index/?code=QJ01XX95'>QJ01XX95</a>),
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<strong>oflo</strong>: ofloxacin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01MA01'>J01MA01</a>),
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<strong>peni</strong>: (benzyl)penicillin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01CE01'>J01CE01</a>),
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<strong>pipe</strong>: piperacillin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01CA12'>J01CA12</a>),
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<strong>pita</strong>: piperacillin+tazobactam (<a href='https://www.whocc.no/atc_ddd_index/?code=J01CR05'>J01CR05</a>),
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<strong>poly</strong>: polymyxin B (<a href='https://www.whocc.no/atc_ddd_index/?code=J01XB02'>J01XB02</a>),
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<strong>pris</strong>: pristinamycin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01FG01'>J01FG01</a>),
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<strong>qida</strong>: quinupristin/dalfopristin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01FG02'>J01FG02</a>),
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<strong>rifa</strong>: rifampicin (<a href='https://www.whocc.no/atc_ddd_index/?code=J04AB02'>J04AB02</a>),
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<strong>roxi</strong>: roxithromycin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01FA06'>J01FA06</a>),
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<strong>siso</strong>: sisomicin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01GB08'>J01GB08</a>),
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<strong>teic</strong>: teicoplanin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01XA02'>J01XA02</a>),
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<strong>tetr</strong>: tetracycline (<a href='https://www.whocc.no/atc_ddd_index/?code=J01AA07'>J01AA07</a>),
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<strong>tica</strong>: ticarcillin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01CA13'>J01CA13</a>),
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<strong>tige</strong>: tigecycline (<a href='https://www.whocc.no/atc_ddd_index/?code=J01AA12'>J01AA12</a>),
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<strong>tobr</strong>: tobramycin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01GB01'>J01GB01</a>),
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<strong>trim</strong>: trimethoprim (<a href='https://www.whocc.no/atc_ddd_index/?code=J01EA01'>J01EA01</a>),
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<strong>trsu</strong>: sulfamethoxazole and trimethoprim (<a href='https://www.whocc.no/atc_ddd_index/?code=J01EE01'>J01EE01</a>),
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<strong>vanc</strong>: vancomycin (<a href='https://www.whocc.no/atc_ddd_index/?code=J01XA01'>J01XA01</a>).</p>
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<h2 class="hasAnchor" id="read-more-on-our-website-"><a class="anchor" href="#read-more-on-our-website-"></a>Read more on our website!</h2>
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