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new tibble export

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dr. M.S. (Matthijs) Berends
2022-08-27 20:49:37 +02:00
parent 164886f50b
commit 303d61b473
115 changed files with 836 additions and 996 deletions
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4
man/bug_drug_combinations.Rd
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@ -25,7 +25,7 @@ bug_drug_combinations(x, col_mo = NULL, FUN = mo_shortname, ...)
)
}
\arguments{
\item{x}{data with antibiotic columns, such as \code{amox}, \code{AMX} and \code{AMC}}
\item{x}{a data set with antibiotic columns, such as \code{amox}, \code{AMX} and \code{AMC}}
\item{col_mo}{column name of the IDs of the microorganisms (see \code{\link[=as.mo]{as.mo()}}), defaults to the first column of class \code{\link{mo}}. Values will be coerced using \code{\link[=as.mo]{as.mo()}}.}
@ -74,7 +74,7 @@ bug_drug_combinations(example_isolates,
FUN = mo_gramstain)
bug_drug_combinations(example_isolates,
FUN = function(x) ifelse(x == as.mo("E. coli"),
FUN = function(x) ifelse(x == as.mo("Escherichia coli"),
"E. coli",
"Others"))
}