mirror of
https://github.com/msberends/AMR.git
synced 2024-12-25 19:26:13 +01:00
31 lines
1.3 KiB
R
31 lines
1.3 KiB
R
% Generated by roxygen2: do not edit by hand
|
|
% Please edit documentation in R/n_rsi.R
|
|
\name{n_rsi}
|
|
\alias{n_rsi}
|
|
\title{Count cases with antimicrobial results}
|
|
\usage{
|
|
n_rsi(...)
|
|
}
|
|
\arguments{
|
|
\item{...}{one or more vectors (or columns) with antibiotic interpretations. They will be transformed internally with \code{\link{as.rsi}} if needed. Use multiple columns to calculate (the lack of) co-resistance: the probability where one of two drugs have a resistant or susceptible result. See Examples.}
|
|
}
|
|
\description{
|
|
This counts all cases where antimicrobial interpretations are available. The way it can be used is equal to \code{\link{n_distinct}}. Its function is equal to \code{count_S(...) + count_IR(...)}.
|
|
}
|
|
\examples{
|
|
library(dplyr)
|
|
|
|
septic_patients \%>\%
|
|
group_by(hospital_id) \%>\%
|
|
summarise(cipro_p = portion_S(cipr, as_percent = TRUE),
|
|
cipro_n = n_rsi(cipr),
|
|
genta_p = portion_S(gent, as_percent = TRUE),
|
|
genta_n = n_rsi(gent),
|
|
combination_p = portion_S(cipr, gent, as_percent = TRUE),
|
|
combination_n = n_rsi(cipr, gent))
|
|
}
|
|
\seealso{
|
|
\code{\link[AMR]{count}_*} to count resistant and susceptibile isolates per interpretation type.\cr
|
|
\code{\link{portion}_*} to calculate microbial resistance and susceptibility.
|
|
}
|