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WHONET/EARS-Net support

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dr. M.S. (Matthijs) Berends
2019-01-29 00:06:50 +01:00
parent f6336fdd89
commit 6aae206320
83 changed files with 1428 additions and 633 deletions
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R/data.R
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@ -22,9 +22,10 @@
#' Data set with ~500 antibiotics
#'
#' A data set containing all antibiotics with a J0 code and some other antimicrobial agents, with their DDDs. Except for trade names and abbreviations, all properties were downloaded from the WHO, see Source.
#' @format A \code{\link{data.frame}} with 488 observations and 16 variables:
#' @format A \code{\link{data.frame}} with 488 observations and 17 variables:
#' \describe{
#' \item{\code{atc}}{ATC code, like \code{J01CR02}}
#' \item{\code{atc}}{ATC code (Anatomical Therapeutic Chemical), like \code{J01CR02}}
#' \item{\code{ears_net}}{EARS-Net code (European Antimicrobial Resistance Surveillance Network), like \code{AMC}}
#' \item{\code{certe}}{Certe code, like \code{amcl}}
#' \item{\code{umcg}}{UMCG code, like \code{AMCL}}
#' \item{\code{abbr}}{Abbreviation as used by many countries, used internally by \code{\link{as.atc}}}
@ -43,6 +44,8 @@
#' }
#' @source - World Health Organization (WHO) Collaborating Centre for Drug Statistics Methodology: \url{https://www.whocc.no/atc_ddd_index/}
#'
#' Table antibiotic coding EARSS (from WHONET 5.3): \url{http://www.madsonline.dk/Tutorials/landskoder_antibiotika_WM.pdf}
#'
#' EUCAST Expert Rules, Intrinsic Resistance and Exceptional Phenotypes Tables. Version 3.1, 2016: \url{http://www.eucast.org/fileadmin/src/media/PDFs/EUCAST_files/Expert_Rules/Expert_rules_intrinsic_exceptional_V3.1.pdf}
#'
#' European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: \url{http://ec.europa.eu/health/documents/community-register/html/atc.htm}