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38 lines
1.3 KiB
R
Executable File
38 lines
1.3 KiB
R
Executable File
% Generated by roxygen2: do not edit by hand
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% Please edit documentation in R/first_isolates.R
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\name{key_antibiotics}
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\alias{key_antibiotics}
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\title{Key antibiotics based on bacteria ID}
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\usage{
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key_antibiotics(tbl, col_bactid = "bactid", info = TRUE, amcl = "amcl",
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amox = "amox", cfot = "cfot", cfta = "cfta", cftr = "cftr",
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cfur = "cfur", cipr = "cipr", clar = "clar", clin = "clin",
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clox = "clox", doxy = "doxy", gent = "gent", line = "line",
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mero = "mero", peni = "peni", pita = "pita", rifa = "rifa",
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teic = "teic", trsu = "trsu", vanc = "vanc")
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}
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\arguments{
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\item{tbl}{table with antibiotics coloms, like \code{amox} and \code{amcl}.}
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\item{col_bactid}{column name of the unique IDs of the microorganisms (should occur in the \code{\link{microorganisms}} dataset). Get your bactid's with the function \code{\link{guess_bactid}}, that takes microorganism names as input.}
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\item{info}{print progress}
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\item{amcl, amox, cfot, cfta, cftr, cfur, cipr, clar, clin, clox, doxy, gent, line, mero, peni, pita, rifa, teic, trsu, vanc}{column names of antibiotics, case-insensitive}
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}
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\value{
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Character of length 1.
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}
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\description{
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Key antibiotics based on bacteria ID
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}
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\examples{
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\donttest{
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#' # set key antibiotics to a new variable
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tbl$keyab <- key_antibiotics(tbl)
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}
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}
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\seealso{
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\code{\link{mo_property}} \code{\link{antibiotics}}
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}
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