AMR/man/example_isolates.Rd

% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/data.R
\docType{data}
\name{example_isolates}
\alias{example_isolates}
\title{Data set with 2,000 blood culture isolates from septic patients}
\format{A \code{\link{data.frame}} with 2,000 observations and 49 variables:
\describe{
  \item{\code{date}}{date of receipt at the laboratory}
  \item{\code{hospital_id}}{ID of the hospital, from A to D}
  \item{\code{ward_icu}}{logical to determine if ward is an intensive care unit}
  \item{\code{ward_clinical}}{logical to determine if ward is a regular clinical ward}
  \item{\code{ward_outpatient}}{logical to determine if ward is an outpatient clinic}
  \item{\code{age}}{age of the patient}
  \item{\code{gender}}{gender of the patient}
  \item{\code{patient_id}}{ID of the patient, first 10 characters of an SHA hash containing irretrievable information}
  \item{\code{mo}}{ID of microorganism created with \code{\link{as.mo}}, see also \code{\link{microorganisms}}}
  \item{\code{peni:rifa}}{40 different antibiotics with class \code{rsi} (see \code{\link{as.rsi}}); these column names occur in \code{\link{antibiotics}} data set and can be translated with \code{\link{ab_name}}}
}}
\usage{
example_isolates
}
\description{
An anonymised data set containing 2,000 microbial blood culture isolates with their full antibiograms found in septic patients in 4 different hospitals in the Netherlands, between 2001 and 2017. This \code{data.frame} can be used to practice AMR analysis. For examples, please read \href{https://msberends.gitlab.io/AMR/articles/AMR.html}{the tutorial on our website}.
}
\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}.
}

\keyword{datasets}