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< h1 > Data set for R/SI interpretation< / h1 >
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< small class = "dont-index" > Source: < a href = 'https://github.com/msberends/AMR/blob/master/R/data.R' > < code > R/data.R< / code > < / a > < / small >
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< div class = "hidden name" > < code > rsi_translation.Rd< / code > < / div >
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< p > Data set to interpret MIC and disk diffusion to R/SI values. Included guidelines are CLSI (2011-2019) and EUCAST (2011-2020). Use < code > < a href = 'as.rsi.html' > as.rsi()< / a > < / code > to transform MICs or disks measurements to R/SI values.< / p >
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< pre class = "usage" > < span class = 'no' > rsi_translation< / span > < / pre >
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< h2 class = "hasAnchor" id = "format" > < a class = "anchor" href = "#format" > < / a > Format< / h2 >
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< p > A < code > < a href = 'https://rdrr.io/r/base/data.frame.html' > data.frame< / a > < / code > with 18,650 observations and 10 variables:< / p > < ul >
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< li > < p > < code > guideline< / code > < br / > Name of the guideline< / p > < / li >
< li > < p > < code > method< / code > < br / > Either "MIC" or "DISK"< / p > < / li >
< li > < p > < code > site< / code > < br / > Body site, e.g. "Oral" or "Respiratory"< / p > < / li >
< li > < p > < code > mo< / code > < br / > Microbial ID, see < code > < a href = 'as.mo.html' > as.mo()< / a > < / code > < / p > < / li >
< li > < p > < code > ab< / code > < br / > Antibiotic ID, see < code > < a href = 'as.ab.html' > as.ab()< / a > < / code > < / p > < / li >
< li > < p > < code > ref_tbl< / code > < br / > Info about where the guideline rule can be found< / p > < / li >
< li > < p > < code > disk_dose< / code > < br / > Dose of the used disk diffusion method< / p > < / li >
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< li > < p > < code > breakpoint_S< / code > < br / > Lowest MIC value or highest number of millimetres that leads to "S"< / p > < / li >
< li > < p > < code > breakpoint_R< / code > < br / > Highest MIC value or lowest number of millimetres that leads to "R"< / p > < / li >
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< li > < p > < code > uti< / code > < br / > A logical value (< code > TRUE< / code > /< code > FALSE< / code > ) to indicate whether the rule applies to a urinary tract infection (UTI)< / p > < / li >
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< / ul >
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< h2 class = "hasAnchor" id = "details" > < a class = "anchor" href = "#details" > < / a > Details< / h2 >
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< p > The repository of this < code > AMR< / code > package contains a file comprising this exact data set: < a href = 'https://github.com/msberends/AMR/blob/master/data-raw/rsi_translation.txt' > https://github.com/msberends/AMR/blob/master/data-raw/rsi_translation.txt< / a > . This file < strong > allows for machine reading EUCAST and CLSI guidelines< / strong > , which is almost impossible with the Excel and PDF files distributed by EUCAST and CLSI. The file is updated automatically.< / p >
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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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< p > On our website < a href = 'https://msberends.github.io/AMR' > https://msberends.github.io/AMR< / a > you can find < a href = 'https://msberends.github.io/AMR/articles/AMR.html' > a comprehensive tutorial< / a > about how to conduct AMR analysis, the < a href = 'https://msberends.github.io/AMR/reference' > complete documentation of all functions< / a > (which reads a lot easier than here in R) and < a href = 'https://msberends.github.io/AMR/articles/WHONET.html' > an example analysis using WHONET data< / a > . As we would like to better understand the backgrounds and needs of our users, please < a href = 'https://msberends.github.io/AMR/survey.html' > participate in our survey< / a > !< / p >
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< p > Developed by < a href = 'https://www.rug.nl/staff/m.s.berends/' > Matthijs S. Berends< / a > , < a href = 'https://www.rug.nl/staff/c.f.luz/' > Christian F. Luz< / a > , < a href = 'https://www.rug.nl/staff/a.w.friedrich/' > Alexander W. Friedrich< / a > , < a href = 'https://www.rug.nl/staff/b.sinha/' > Bhanu N. M. Sinha< / a > , < a href = 'https://www.rug.nl/staff/c.j.albers/' > Casper J. Albers< / a > , < a href = 'https://www.rug.nl/staff/c.glasner/' > Corinna Glasner< / a > .< / p >
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