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use guess_bactid for GLIMS codes

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dr. M.S. (Matthijs) Berends
2018-03-19 21:23:21 +01:00
parent c765f424ab
commit fe803f7279
5 changed files with 19 additions and 12 deletions
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R/data.R
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@ -85,14 +85,14 @@
#' Translation table for UMCG with ~1100 microorganisms
#'
#' A dataset containing all bacteria codes of UMCG MMB. These codes can be joined to data with an ID from \code{\link{bactlist}$bactid}, using \code{\link{left_join_bactlist}}.
#' A dataset containing all bacteria codes of UMCG MMB. These codes can be joined to data with an ID from \code{\link{bactlist}$bactid} (using \code{\link{left_join_bactlist}}). GLIMS codes can also be translated to valid \code{bactid}'s with \code{\link{guess_bactid}}.
#' @format A data.frame with 1090 observations and 2 variables:
#' \describe{
#' \item{\code{mocode}}{Code of microorganism according to UMCG MMB}
#' \item{\code{bactid}}{Code of microorganism in \code{\link{bactlist}}}
#' }
#' @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}}
#' @seealso \code{\link{guess_bactid}} \code{\link{bactlist}}
"bactlist.umcg"
#' Dataset with 2000 blood culture isolates of septic patients