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(v1.7.1.9016) only_treatable ab selectors

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dr. M.S. (Matthijs) Berends
2021-07-08 22:23:28 +02:00
parent 625a6fb304
commit b228eb1536
25 changed files with 112 additions and 79 deletions
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12
man/antibiotic_class_selectors.Rd
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@ -27,15 +27,15 @@
\alias{ureidopenicillins}
\title{Antibiotic Class Selectors}
\usage{
ab_class(ab_class, only_rsi_columns = FALSE)
ab_class(ab_class, only_rsi_columns = FALSE, only_treatable = TRUE)
aminoglycosides(only_rsi_columns = FALSE)
aminoglycosides(only_rsi_columns = FALSE, only_treatable = TRUE)
aminopenicillins(only_rsi_columns = FALSE)
betalactams(only_rsi_columns = FALSE)
betalactams(only_rsi_columns = FALSE, only_treatable = TRUE)
carbapenems(only_rsi_columns = FALSE)
carbapenems(only_rsi_columns = FALSE, only_treatable = TRUE)
cephalosporins(only_rsi_columns = FALSE)
@ -63,7 +63,7 @@ oxazolidinones(only_rsi_columns = FALSE)
penicillins(only_rsi_columns = FALSE)
polymyxins(only_rsi_columns = FALSE)
polymyxins(only_rsi_columns = FALSE, only_treatable = TRUE)
streptogramins(only_rsi_columns = FALSE)
@ -77,6 +77,8 @@ ureidopenicillins(only_rsi_columns = FALSE)
\item{ab_class}{an antimicrobial class, such as \code{"carbapenems"}. The columns \code{group}, \code{atc_group1} and \code{atc_group2} of the \link{antibiotics} data set will be searched (case-insensitive) for this value.}
\item{only_rsi_columns}{a \link{logical} to indicate whether only columns of class \verb{<rsi>} must be selected (defaults to \code{FALSE}), see \code{\link[=as.rsi]{as.rsi()}}}
\item{only_treatable}{a \link{logical} to indicate whether agents that are only for laboratory tests should be excluded (defaults to \code{TRUE}), such as gentamicin-high (\code{GEH}) and imipenem/EDTA (\code{IPE})}
}
\description{
These functions allow for filtering rows and selecting columns based on antibiotic test results that are of a specific antibiotic class, without the need to define the columns or antibiotic abbreviations.