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add Dialister to microorganisms

This commit is contained in:
dr. M.S. (Matthijs) Berends 2018-08-03 11:46:06 +02:00
parent db5a0d32a5
commit 227121af3d
3 changed files with 11 additions and 2 deletions

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@ -236,8 +236,8 @@
#' Dataset with ~2500 microorganisms
#'
#' A dataset containing 2456 microorganisms. MO codes of the UMCG can be looked up using \code{\link{microorganisms.umcg}}.
#' @format A data.frame with 2456 observations and 12 variables:
#' A dataset containing 2464 microorganisms. MO codes of the UMCG can be looked up using \code{\link{microorganisms.umcg}}.
#' @format A data.frame with 2464 observations and 12 variables:
#' \describe{
#' \item{\code{bactid}}{ID of microorganism}
#' \item{\code{bactsys}}{Bactsyscode of microorganism}
@ -253,6 +253,15 @@
#' \item{\code{gramstain_nl}}{Gram of microorganism in Dutch, like \code{"Negatieve staven"}}
#' }
# source MOLIS (LIS of Certe) - \url{https://www.certe.nl}
# new <- microorganisms %>% filter(genus == "Bacteroides") %>% .[1,]
# new[1, 'bactid'] <- "DIAPNU"
# new[1, 'bactsys'] <- "DIAPNU"
# new[1, 'family'] <- "Veillonellaceae"
# new[1, 'genus'] <- "Dialister"
# new[1, 'species'] <- "pneumosintes"
# new[1, 'subspecies'] <- NA
# new[1, 'fullname'] <- paste(new[1, 'genus'], new[1, 'species'])
# microorganisms <- microorganisms %>% bind_rows(new) %>% arrange(bactid)
#' @seealso \code{\link{guess_bactid}} \code{\link{antibiotics}} \code{\link{microorganisms.umcg}}
"microorganisms"

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