mirror of https://github.com/msberends/AMR.git
53 lines
1.8 KiB
R
53 lines
1.8 KiB
R
% Generated by roxygen2: do not edit by hand
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% Please edit documentation in R/abname.R
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\name{abname}
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\alias{abname}
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\title{Name of an antibiotic}
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\source{
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\code{\link{antibiotics}}
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}
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\usage{
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abname(abcode, from = c("guess", "atc", "molis", "umcg"),
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to = "official", textbetween = " + ", tolower = FALSE)
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}
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\arguments{
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\item{abcode}{a code or name, like \code{"AMOX"}, \code{"AMCL"} or \code{"J01CA04"}}
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\item{from, to}{type to transform from and to. See \code{\link{antibiotics}} for its column names. WIth \code{from = "guess"} the from will be guessed from \code{"atc"}, \code{"molis"} and \code{"umcg"}. When using \code{to = "atc"}, the ATC code will be searched using \code{\link{guess_atc}}.}
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\item{textbetween}{text to put between multiple returned texts}
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\item{tolower}{return output as lower case with function \code{\link{tolower}}.}
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}
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\description{
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Convert antibiotic codes (from a laboratory information system like MOLIS or GLIMS) to a (trivial) antibiotic name or ATC code, or vice versa. This uses the data from \code{\link{antibiotics}}.
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}
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\examples{
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abname("AMCL")
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# "amoxicillin and enzyme inhibitor"
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# It is quite flexible at default (having `from = "guess"`)
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abname(c("amox", "J01CA04", "Trimox", "dispermox", "Amoxil"))
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# "Amoxicillin" "Amoxicillin" "Amoxicillin" "Amoxicillin" "Amoxicillin"
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# Multiple antibiotics can be combined with "+".
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# The second antibiotic will be set to lower case when `tolower` was not set:
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abname("AMCL+GENT", textbetween = "/")
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# "amoxicillin and enzyme inhibitor/gentamicin"
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abname(c("AMCL", "GENT"))
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# "Amoxicillin and beta-lactamase inhibitor" "Gentamicin"
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abname("AMCL", to = "trivial_nl")
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# "Amoxicilline/clavulaanzuur"
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abname("AMCL", to = "atc")
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# "J01CR02"
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# specific codes for University Medical Center Groningen (UMCG):
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abname("J01CR02", from = "atc", to = "umcg")
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# "AMCL"
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}
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\keyword{ab}
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\keyword{antibiotics}
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