mirror of https://github.com/msberends/AMR.git
43 lines
1.6 KiB
R
43 lines
1.6 KiB
R
% Generated by roxygen2: do not edit by hand
|
|
% Please edit documentation in R/availability.R
|
|
\name{availability}
|
|
\alias{availability}
|
|
\title{Check availability of columns}
|
|
\usage{
|
|
availability(tbl, width = NULL)
|
|
}
|
|
\arguments{
|
|
\item{tbl}{a \code{\link{data.frame}} or \code{\link{list}}}
|
|
|
|
\item{width}{number of characters to present the visual availability, defaults to filling the width of the console}
|
|
}
|
|
\value{
|
|
\code{\link{data.frame}} with column names of \code{tbl} as row names
|
|
}
|
|
\description{
|
|
Easy check for availability of columns in a data set. This makes it easy to get an idea of which antimicrobial combination can be used for calculation with e.g. \code{\link[=resistance]{resistance()}}.
|
|
}
|
|
\details{
|
|
The function returns a \code{\link{data.frame}} with columns \code{"resistant"} and \code{"visual_resistance"}. The values in that columns are calculated with \code{\link[=resistance]{resistance()}}.
|
|
}
|
|
\section{Read more on our website!}{
|
|
|
|
On our website \url{https://msberends.gitlab.io/AMR} you can find \href{https://msberends.gitlab.io/AMR/articles/AMR.html}{a tutorial} about how to conduct AMR analysis, the \href{https://msberends.gitlab.io/AMR/reference}{complete documentation of all functions} (which reads a lot easier than here in R) and \href{https://msberends.gitlab.io/AMR/articles/WHONET.html}{an example analysis using WHONET data}.
|
|
}
|
|
|
|
\examples{
|
|
availability(example_isolates)
|
|
|
|
library(dplyr)
|
|
example_isolates \%>\% availability()
|
|
|
|
example_isolates \%>\%
|
|
select_if(is.rsi) \%>\%
|
|
availability()
|
|
|
|
example_isolates \%>\%
|
|
filter(mo == as.mo("E. coli")) \%>\%
|
|
select_if(is.rsi) \%>\%
|
|
availability()
|
|
}
|