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< h1 > Class 'disk'< / h1 >
< div class = "hidden name" > < code > as.disk.Rd< / code > < / div >
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< p > This transforms a vector to a new class < code > disk< / code > , which is a growth zone size (around an antibiotic disk) in millimetres between 6 and 50.< / p >
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< / div >
< pre class = "usage" > < span class = 'fu' > as.disk< / span > (< span class = 'no' > x< / span > , < span class = 'kw' > na.rm< / span > < span class = 'kw' > =< / span > < span class = 'fl' > FALSE< / span > )
< span class = 'fu' > is.disk< / span > (< span class = 'no' > x< / span > )< / pre >
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< h2 class = "hasAnchor" id = "arguments" > < a class = "anchor" href = "#arguments" > < / a > Arguments< / h2 >
< table class = "ref-arguments" >
< colgroup > < col class = "name" / > < col class = "desc" / > < / colgroup >
< tr >
< th > x< / th >
< td > < p > vector< / p > < / td >
< / tr >
< tr >
< th > na.rm< / th >
< td > < p > a logical indicating whether missing values should be removed< / p > < / td >
< / tr >
< / table >
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< h2 class = "hasAnchor" id = "value" > < a class = "anchor" href = "#value" > < / a > Value< / h2 >
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< p > An < code > < a href = 'https://rdrr.io/r/base/integer.html' > integer< / a > < / code > with additional new class < code > disk< / code > < / p >
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< h2 class = "hasAnchor" id = "details" > < a class = "anchor" href = "#details" > < / a > Details< / h2 >
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< p > Interpret disk values as RSI values with < code > < a href = 'as.rsi.html' > as.rsi()< / a > < / code > . It supports guidelines from EUCAST and CLSI.< / p >
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< h2 class = "hasAnchor" id = "stable-lifecycle" > < a class = "anchor" href = "#stable-lifecycle" > < / a > Stable lifecycle< / h2 >
< p > < img src = 'figures/lifecycle_stable.svg' style = margin-bottom:5px / > < br / >
The < a href = 'lifecycle.html' > lifecycle< / a > of this function is < strong > stable< / strong > . In a stable function, we are largely happy with the unlying code, and major changes are unlikely. This means that the unlying code will generally evolve by adding new arguments; we will avoid removing arguments or changing the meaning of existing arguments.< / p >
< p > If the unlying code needs breaking changes, they will occur gradually. To begin with, the function or argument will be deprecated; it will continue to work but will emit an message informing you of the change. Next, typically after at least one newly released version on CRAN, the message will be transformed to an error.< / 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.gitlab.io/AMR' > https://msberends.gitlab.io/AMR< / a > you can find < a href = 'https://msberends.gitlab.io/AMR/articles/AMR.html' > a comprehensive tutorial< / a > about how to conduct AMR analysis, the < a href = 'https://msberends.gitlab.io/AMR/reference' > complete documentation of all functions< / a > (which reads a lot easier than here in R) and < a href = 'https://msberends.gitlab.io/AMR/articles/WHONET.html' > an example analysis using WHONET data< / a > .< / p >
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< h2 class = "hasAnchor" id = "see-also" > < a class = "anchor" href = "#see-also" > < / a > See also< / h2 >
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< div class = 'dont-index' > < p > < code > < a href = 'as.rsi.html' > as.rsi()< / a > < / code > < / p > < / div >
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< h2 class = "hasAnchor" id = "examples" > < a class = "anchor" href = "#examples" > < / a > Examples< / h2 >
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< pre class = "examples" > < span class = 'co' > # transform existing disk zones to the `disk` class< / span >
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< span class = 'fu' > < a href = 'https://rdrr.io/r/base/library.html' > library< / a > < / span > (< span class = 'no' > dplyr< / span > )
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< span class = 'no' > df< / span > < span class = 'kw' > < -< / span > < span class = 'fu' > < a href = 'https://rdrr.io/r/base/data.frame.html' > data.frame< / a > < / span > (< span class = 'kw' > microorganism< / span > < span class = 'kw' > =< / span > < span class = 'st' > "E. coli"< / span > ,
< span class = 'kw' > AMP< / span > < span class = 'kw' > =< / span > < span class = 'fl' > 20< / span > ,
< span class = 'kw' > CIP< / span > < span class = 'kw' > =< / span > < span class = 'fl' > 14< / span > ,
< span class = 'kw' > GEN< / span > < span class = 'kw' > =< / span > < span class = 'fl' > 18< / span > ,
< span class = 'kw' > TOB< / span > < span class = 'kw' > =< / span > < span class = 'fl' > 16< / span > )
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< span class = 'no' > df< / span > < span class = 'kw' > < -< / span > < span class = 'no' > df< / span > < span class = 'kw' > %> %< / span > < span class = 'fu' > < a href = 'https://dplyr.tidyverse.org/reference/mutate_all.html' > mutate_at< / a > < / span > (< span class = 'fu' > < a href = 'https://dplyr.tidyverse.org/reference/vars.html' > vars< / a > < / span > (< span class = 'no' > AMP< / span > :< span class = 'no' > TOB< / span > ), < span class = 'no' > as.disk< / span > )
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< span class = 'no' > df< / span >
< span class = 'co' > # interpret disk values, see ?as.rsi< / span >
< span class = 'fu' > < a href = 'as.rsi.html' > as.rsi< / a > < / span > (< span class = 'kw' > x< / span > < span class = 'kw' > =< / span > < span class = 'fu' > as.disk< / span > (< span class = 'fl' > 18< / span > ),
< span class = 'kw' > mo< / span > < span class = 'kw' > =< / span > < span class = 'st' > "Strep pneu"< / span > , < span class = 'co' > # `mo` will be coerced with as.mo()< / span >
< span class = 'kw' > ab< / span > < span class = 'kw' > =< / span > < span class = 'st' > "ampicillin"< / span > , < span class = 'co' > # and `ab` with as.ab()< / span >
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< span class = 'kw' > guideline< / span > < span class = 'kw' > =< / span > < span class = 'st' > "EUCAST"< / span > )
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< span class = 'fu' > < a href = 'as.rsi.html' > as.rsi< / a > < / span > (< span class = 'no' > df< / span > )< / pre >
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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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< p > Site built with < a href = "https://pkgdown.r-lib.org/" > pkgdown< / a > 1.4.1.9000.< / p >
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