inst/ignore/convertIds.R

In cannin/paxtoolsr: Access Pathways from Multiple Databases Through BioPAX and Pathway Commons

#' Covert IDs Using org.Hs.eg.db
#'
#' @param ids a vector of ids
#' @param from the original ID type
#' @param to the ID type to convert to
#'
#' @return a vector of converted IDs
#'
#' @examples
#' convertIds("TP53", "SYMBOL", "ENTREZID")
#'
#' @concept paxtoolsr
#' @export
convertIds <- function(ids, from="UNIPROT", to="SYMBOL") {
  if(!require("org.Hs.eg.db")) {
      stop("This function requires org.Hs.eg.db.")
  }

  df <- select(org.Hs.eg.db, keys=ids, columns=c(from, to), keytype=from)

  return(df[,2])
}