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added septic_patients

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dr. M.S. (Matthijs) Berends
2018-02-27 20:01:02 +01:00
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R/data.R
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@ -75,3 +75,22 @@
#' @source MOLIS (LIS of Certe) - \url{https://www.certe.nl} \cr \cr GLIMS (LIS of UMCG) - \url{https://www.umcg.nl}
#' @seealso \code{\link{bactlist}}
"bactlist.umcg"
#' Dataset with 2000 blood culture isolates of septic patients
#'
#' An anonymised dataset containing 2000 microbial blood culture isolates with their antibiogram of septic patients found in 5 different hospitals in the Netherlands, between 2001 and 2017. This data.frame can be used to practice AMR analysis e.g. with \code{\link{rsi}} or \code{\link{rsi_predict}}, or it can be used to practice other statistics.
#' @format A data.frame with 2000 observations and 47 variables:
#' \describe{
#' \item{\code{date}}{date of receipt at the laboratory}
#' \item{\code{hospital_id}}{ID of the hospital}
#' \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{sex}}{sex of the patient}
#' \item{\code{patient_id}}{ID of the patient, first 10 characters of an SHA hash containing irretrievable information}
#' \item{\code{bactid}}{ID of microorganism, see \code{\link{bactlist}}}
#' \item{\code{peni:mupi}}{38 different antibiotics with class \code{rsi} (see \code{\link{as.rsi}}), these column names occur in \code{\link{ablist}} and can be translated with \code{\link{abname}}}
#' }
#' @source MOLIS (LIS of Certe) - \url{https://www.certe.nl}
"septic_patients"