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new verbose
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@ -56,12 +56,12 @@ interpretive_reading(...)
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\item{col_bactid}{Deprecated. Use \code{col_mo} instead.}
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\item{verbose}{a logical to indicate whether extensive info should be printed to the console about which rows and columns are effected with their old and new values}
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\item{verbose}{a logical to indicate whether extensive info should be returned as a \code{data.frame} with info about which rows and columns are effected}
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\item{...}{parameters that are passed on to \code{EUCAST_rules}}
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}
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\value{
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Value of parameter \code{tbl}, possibly with edited values of antibiotics.
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The input of \code{tbl}, possibly with edited values of antibiotics. Or, if \code{verbose = TRUE}, a \code{data.frame} with verbose info.
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}
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\description{
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Apply susceptibility rules as defined by the European Committee on Antimicrobial Susceptibility Testing (EUCAST, \url{http://eucast.org}), see \emph{Source}. This includes (1) expert rules, (2) intrinsic resistance and (3) inferred resistance as defined in their breakpoint tables.
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