Remove deprecated keep_transitions

NAMESPACE

@@ -11,7 +11,6 @@ export(f3)
 export(f4)
 export(f4ratio)
 export(filter_bed)
-export(keep_transitions)
 export(loginfo)
 export(merge_eigenstrat)
 export(qpAdm)

R/eigenstrat.R

@@ -195,23 +195,6 @@ filter_bed <- function(data, bed, remove = FALSE, outfile = tempfile(fileext = "
 
 
 
-#' Remove transversions (C->T and G->A substitutions)
-#'
-#' Remove substitutions that are more likely to be a result of ancient DNA
-#' damage (C->T and G->A substitutions).
-#'
-#' @param data EIGENSTRAT data object.
-#' @param outfile Path to an output snp file with coordinates of excluded sites.
-#'
-#' @return Updated S3 EIGENSTRAT data object with an additional 'exclude' slot
-#'     specifying the path to the set of SNPs to be removed.
-#'
-#' @export
-keep_transitions <- function(data, outfile = tempfile(fileext = ".snp")) {
-  .Deprecated("transversions_only")
-  transversions_only(data, outfile)
-}
-
 #' Remove transversions (C->T and G->A substitutions)
 #'
 #' Remove substitutions that are more likely to be a result of ancient DNA