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(v1.7.1.9011) subsetting taxonomy fix

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dr. M.S. (Matthijs) Berends
2021-07-04 15:26:50 +02:00
parent 3bd50710e8
commit 5b5741f681
20 changed files with 94 additions and 86 deletions
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man/bug_drug_combinations.Rd
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@ -58,7 +58,7 @@ bug_drug_combinations(x, col_mo = NULL, FUN = mo_shortname, ...)
The function \code{\link[=bug_drug_combinations]{bug_drug_combinations()}} returns a \link{data.frame} with columns "mo", "ab", "S", "I", "R" and "total".
}
\description{
Determine antimicrobial resistance (AMR) of all bug-drug combinations in your data set where at least 30 (default) isolates are available per species. Use \code{\link[=format]{format()}} on the result to prettify it to a publicable/printable format, see \emph{Examples}.
Determine antimicrobial resistance (AMR) of all bug-drug combinations in your data set where at least 30 (default) isolates are available per species. Use \code{\link[=format]{format()}} on the result to prettify it to a publishable/printable format, see \emph{Examples}.
}
\details{
The function \code{\link[=format]{format()}} calculates the resistance per bug-drug combination. Use \code{combine_IR = FALSE} (default) to test R vs. S+I and \code{combine_IR = TRUE} to test R+I vs. S.