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(v0.7.0.9008) T. vaginalis, rsi_df

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dr. M.S. (Matthijs) Berends
2019-06-13 14:28:46 +02:00
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man/count.Rd
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@ -58,9 +58,11 @@ These functions can be used to count resistant/susceptible microbial isolates. A
\details{
These functions are meant to count isolates. Use the \code{\link{portion}_*} functions to calculate microbial resistance.
\code{n_rsi} is an alias of \code{count_all}. They can be used to count all available isolates, i.e. where all input antibiotics have an available result (S, I or R). Their use is equal to \code{\link{n_distinct}}. Their function is equal to \code{count_S(...) + count_IR(...)}.
The function \code{n_rsi} is an alias of \code{count_all}. They can be used to count all available isolates, i.e. where all input antibiotics have an available result (S, I or R). Their use is equal to \code{\link{n_distinct}}. Their function is equal to \code{count_S(...) + count_IR(...)}.
\code{count_df} takes any variable from \code{data} that has an \code{"rsi"} class (created with \code{\link{as.rsi}}) and counts the amounts of R, I and S. The resulting \emph{tidy data} (see Source) \code{data.frame} will have three rows (S/I/R) and a column for each variable with class \code{"rsi"}.
The function \code{count_df} takes any variable from \code{data} that has an \code{"rsi"} class (created with \code{\link{as.rsi}}) and counts the amounts of S, I and R. The resulting \emph{tidy data} (see Source) \code{data.frame} will have three rows (S/I/R) and a column for each variable with class \code{"rsi"}.
The function \code{rsi_df} works exactly like \code{count_df}, but add the percentage of S, I and R.
}
\section{Interpretation of S, I and R}{