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(v1.7.1.9073) as.rsi() fix for UTIs

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dr. M.S. (Matthijs) Berends
2021-12-14 21:47:14 +01:00
parent 5eef01165e
commit bd4bb1d72f
25 changed files with 27787 additions and 27785 deletions
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6
man/intrinsic_resistant.Rd
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@ -7,8 +7,8 @@
\format{
A \link{data.frame} with 134,956 observations and 2 variables:
\itemize{
\item \code{microorganism}\cr Official taxonomic name of the microorganism, according to the LPSN
\item \code{antibiotic}\cr Official name of the antibiotic drug, according to the WHOCC
\item \code{mo}\cr Microorganism ID
\item \code{ab}\cr Antibiotic ID
}
}
\usage{
@ -18,7 +18,7 @@ intrinsic_resistant
Data set containing defined intrinsic resistance by EUCAST of all bug-drug combinations.
}
\details{
The repository of this \code{AMR} package contains a file comprising this exact data set: \url{https://github.com/msberends/AMR/blob/main/data-raw/intrinsic_resistant.txt}. This file \strong{allows for machine reading EUCAST guidelines about intrinsic resistance}, which is almost impossible with the Excel and PDF files distributed by EUCAST. The file is updated automatically.
The repository of this \code{AMR} package contains a file comprising this data set with full taxonomic and antibiotic names: \url{https://github.com/msberends/AMR/blob/main/data-raw/intrinsic_resistant.txt}. This file \strong{allows for machine reading EUCAST guidelines about intrinsic resistance}, which is almost impossible with the Excel and PDF files distributed by EUCAST. The file is updated automatically.
This data set is based on \href{https://www.eucast.org/expert_rules_and_intrinsic_resistance/}{'EUCAST Expert Rules' and 'EUCAST Intrinsic Resistance and Unusual Phenotypes' v3.3} (2021).
}