diff --git a/NAMESPACE b/NAMESPACE
index 5cfae4d..3c39f48 100644
--- a/NAMESPACE
+++ b/NAMESPACE
@@ -77,9 +77,13 @@ export(anchors2)
 export(arrange)
 export(as_ginteractions)
 export(count)
+export(count_overlaps)
+export(count_overlaps_directed)
 export(end1)
 export(end2)
 export(filter)
+export(filter_by_non_overlaps)
+export(filter_by_overlaps)
 export(find_overlaps)
 export(find_overlaps_directed)
 export(flank_downstream)
diff --git a/R/count-overlaps.R b/R/count-overlaps.R
index e20748e..af845af 100644
--- a/R/count-overlaps.R
+++ b/R/count-overlaps.R
@@ -5,7 +5,7 @@
 #' When using `count_overlaps()` with a `PinnedGInteractions` object, 
 #' only the pinned anchors are used to check for overlap with `y`. 
 #' This is equivalent to specifying `use.region="both"` in 
-#' \code{\href{https://bioconductor.org/packages/release/bioc/vignettes/InteractionSet/inst/doc/interactions.html#27_Overlap_methods}{InteractionSet::countOverlaps()}}.
+#' `InteractionSet::findOverlaps()`.
 #' 
 #' @param x A (Pinned)GInteractions object
 #' @param y A GRanges object
@@ -81,7 +81,7 @@ count_overlaps.PinnedGInteractions <- function(
 #' @rdname ginteractions-count-overlaps
 #' @export
 count_overlaps.GInteractions <- function(
-    x, y, maxgap = -1L, minoverlap = 0L, suffix = c(".x", ".y")
+    x, y, maxgap = -1L, minoverlap = 0L
 ) {
 
     InteractionSet::countOverlaps( 
@@ -99,7 +99,7 @@ count_overlaps.GInteractions <- function(
 #' @rdname ginteractions-count-overlaps
 #' @export
 count_overlaps_directed.PinnedGInteractions <- function(
-    x, y, maxgap = -1L, minoverlap = 0L, suffix = c(".x", ".y")
+    x, y, maxgap = -1L, minoverlap = 0L
 ) {
 
     InteractionSet::countOverlaps( 
@@ -121,7 +121,7 @@ count_overlaps_directed.PinnedGInteractions <- function(
 #' @rdname ginteractions-count-overlaps
 #' @export
 count_overlaps_directed.GInteractions <- function(
-    x, y, maxgap = -1L, minoverlap = 0L, suffix = c(".x", ".y")
+    x, y, maxgap = -1L, minoverlap = 0L
 ) {
 
     InteractionSet::countOverlaps( 
diff --git a/R/filter-overlaps.R b/R/filter-overlaps.R
index 3d45b17..a15f956 100644
--- a/R/filter-overlaps.R
+++ b/R/filter-overlaps.R
@@ -5,7 +5,7 @@
 #' When using `filter_by_overlaps()` with a `PinnedGInteractions` object, 
 #' only the pinned anchors are used to check for overlap with `y`. 
 #' This is equivalent to specifying `use.region="both"` in 
-#' \code{\href{https://bioconductor.org/packages/release/bioc/vignettes/InteractionSet/inst/doc/interactions.html#27_Overlap_methods}{InteractionSet::countOverlaps()}}.
+#' `InteractionSet::findOverlaps()`.
 #' 
 #' @param x A (Pinned)GInteractions object
 #' @param y A GRanges object
@@ -81,7 +81,7 @@ filter_by_overlaps.PinnedGInteractions <- function(
 #' @rdname ginteractions-filter-overlaps
 #' @export
 filter_by_overlaps.GInteractions <- function(
-    x, y, maxgap = -1L, minoverlap = 0L, suffix = c(".x", ".y")
+    x, y, maxgap = -1L, minoverlap = 0L
 ) {
 
     IRanges::subsetByOverlaps( 
@@ -122,7 +122,7 @@ filter_by_non_overlaps.PinnedGInteractions <- function(
 #' @rdname ginteractions-filter-overlaps
 #' @export
 filter_by_non_overlaps.GInteractions <- function(
-    x, y, maxgap = -1L, minoverlap = 0L, suffix = c(".x", ".y")
+    x, y, maxgap = -1L, minoverlap = 0L
 ) {
 
     IRanges::subsetByOverlaps( 
diff --git a/R/find-overlaps.R b/R/find-overlaps.R
index 088c6c5..623310f 100644
--- a/R/find-overlaps.R
+++ b/R/find-overlaps.R
@@ -13,7 +13,7 @@
 #' When using `find_overlaps()` with a `PinnedGInteractions` object, 
 #' only the pinned anchors are used to check for overlap with `y`. 
 #' This is equivalent to specifying `use.region="both"` in 
-#' \code{\href{https://bioconductor.org/packages/release/bioc/vignettes/InteractionSet/inst/doc/interactions.html#27_Overlap_methods}{InteractionSet::findOverlaps()}}.
+#' `InteractionSet::findOverlaps()`.
 #' 
 #' @param x A (Pinned)GInteractions object
 #' @param y A GRanges object
diff --git a/R/reexports-plyranges.R b/R/reexports-plyranges.R
index 2009030..e6bc8b9 100644
--- a/R/reexports-plyranges.R
+++ b/R/reexports-plyranges.R
@@ -47,3 +47,23 @@ plyranges::find_overlaps
 #' @importFrom plyranges find_overlaps_directed
 #' @export
 plyranges::find_overlaps_directed
+
+#' @rdname reexports
+#' @importFrom plyranges count_overlaps
+#' @export
+plyranges::count_overlaps
+
+#' @rdname reexports
+#' @importFrom plyranges count_overlaps_directed
+#' @export
+plyranges::count_overlaps_directed
+
+#' @rdname reexports
+#' @importFrom plyranges filter_by_overlaps
+#' @export
+plyranges::filter_by_overlaps
+
+#' @rdname reexports
+#' @importFrom plyranges filter_by_non_overlaps
+#' @export
+plyranges::filter_by_non_overlaps
diff --git a/man/ginteractions-count-overlaps.Rd b/man/ginteractions-count-overlaps.Rd
index 7d2e3ca..3d4c27c 100644
--- a/man/ginteractions-count-overlaps.Rd
+++ b/man/ginteractions-count-overlaps.Rd
@@ -10,23 +10,11 @@
 \usage{
 \method{count_overlaps}{PinnedGInteractions}(x, y, maxgap = -1L, minoverlap = 0L)
 
-\method{count_overlaps}{GInteractions}(x, y, maxgap = -1L, minoverlap = 0L, suffix = c(".x", ".y"))
-
-\method{count_overlaps_directed}{PinnedGInteractions}(
-  x,
-  y,
-  maxgap = -1L,
-  minoverlap = 0L,
-  suffix = c(".x", ".y")
-)
-
-\method{count_overlaps_directed}{GInteractions}(
-  x,
-  y,
-  maxgap = -1L,
-  minoverlap = 0L,
-  suffix = c(".x", ".y")
-)
+\method{count_overlaps}{GInteractions}(x, y, maxgap = -1L, minoverlap = 0L)
+
+\method{count_overlaps_directed}{PinnedGInteractions}(x, y, maxgap = -1L, minoverlap = 0L)
+
+\method{count_overlaps_directed}{GInteractions}(x, y, maxgap = -1L, minoverlap = 0L)
 }
 \arguments{
 \item{x}{A (Pinned)GInteractions object}
@@ -48,7 +36,7 @@ Count overlaps between a query GInteractions and a GRanges
 When using \code{count_overlaps()} with a \code{PinnedGInteractions} object,
 only the pinned anchors are used to check for overlap with \code{y}.
 This is equivalent to specifying \code{use.region="both"} in
-\code{\href{https://bioconductor.org/packages/release/bioc/vignettes/InteractionSet/inst/doc/interactions.html#27_Overlap_methods}{InteractionSet::countOverlaps()}}.
+\code{InteractionSet::findOverlaps()}.
 }
 
 \examples{
diff --git a/man/ginteractions-filter-overlaps.Rd b/man/ginteractions-filter-overlaps.Rd
index 98ee618..a7545f9 100644
--- a/man/ginteractions-filter-overlaps.Rd
+++ b/man/ginteractions-filter-overlaps.Rd
@@ -10,17 +10,11 @@
 \usage{
 \method{filter_by_overlaps}{PinnedGInteractions}(x, y, maxgap = -1L, minoverlap = 0L)
 
-\method{filter_by_overlaps}{GInteractions}(x, y, maxgap = -1L, minoverlap = 0L, suffix = c(".x", ".y"))
+\method{filter_by_overlaps}{GInteractions}(x, y, maxgap = -1L, minoverlap = 0L)
 
 \method{filter_by_non_overlaps}{PinnedGInteractions}(x, y, maxgap = -1L, minoverlap = 0L)
 
-\method{filter_by_non_overlaps}{GInteractions}(
-  x,
-  y,
-  maxgap = -1L,
-  minoverlap = 0L,
-  suffix = c(".x", ".y")
-)
+\method{filter_by_non_overlaps}{GInteractions}(x, y, maxgap = -1L, minoverlap = 0L)
 }
 \arguments{
 \item{x}{A (Pinned)GInteractions object}
@@ -42,7 +36,7 @@ Filter GInteractions overlapping with a GRanges
 When using \code{filter_by_overlaps()} with a \code{PinnedGInteractions} object,
 only the pinned anchors are used to check for overlap with \code{y}.
 This is equivalent to specifying \code{use.region="both"} in
-\code{\href{https://bioconductor.org/packages/release/bioc/vignettes/InteractionSet/inst/doc/interactions.html#27_Overlap_methods}{InteractionSet::countOverlaps()}}.
+\code{InteractionSet::findOverlaps()}.
 }
 
 \examples{
diff --git a/man/ginteractions-find-overlaps.Rd b/man/ginteractions-find-overlaps.Rd
index fb73b68..cd8bb76 100644
--- a/man/ginteractions-find-overlaps.Rd
+++ b/man/ginteractions-find-overlaps.Rd
@@ -62,7 +62,7 @@ have additional metadata columns corresponding to the metadata from \code{y}.
 When using \code{find_overlaps()} with a \code{PinnedGInteractions} object,
 only the pinned anchors are used to check for overlap with \code{y}.
 This is equivalent to specifying \code{use.region="both"} in
-\code{\href{https://bioconductor.org/packages/release/bioc/vignettes/InteractionSet/inst/doc/interactions.html#27_Overlap_methods}{InteractionSet::findOverlaps()}}.
+\code{InteractionSet::findOverlaps()}.
 }
 
 \examples{
diff --git a/man/reexports.Rd b/man/reexports.Rd
index c4805cf..6227311 100644
--- a/man/reexports.Rd
+++ b/man/reexports.Rd
@@ -34,6 +34,10 @@
 \alias{stretch}
 \alias{find_overlaps}
 \alias{find_overlaps_directed}
+\alias{count_overlaps}
+\alias{count_overlaps_directed}
+\alias{filter_by_overlaps}
+\alias{filter_by_non_overlaps}
 \title{Objects exported from other packages}
 \value{
 Depending on the re-exported function
@@ -49,6 +53,6 @@ below to see their documentation.
 \describe{
   \item{dplyr}{\code{\link[dplyr]{arrange}}, \code{\link[dplyr]{count}}, \code{\link[dplyr]{filter}}, \code{\link[dplyr]{group_by}}, \code{\link[dplyr]{group_data}}, \code{\link[dplyr:group_data]{group_indices}}, \code{\link[dplyr:group_data]{group_keys}}, \code{\link[dplyr:group_data]{group_rows}}, \code{\link[dplyr:group_data]{group_size}}, \code{\link[dplyr:group_data]{group_vars}}, \code{\link[dplyr:group_data]{groups}}, \code{\link[dplyr]{mutate}}, \code{\link[dplyr:group_data]{n_groups}}, \code{\link[dplyr]{rename}}, \code{\link[dplyr]{select}}, \code{\link[dplyr]{slice}}, \code{\link[dplyr]{summarise}}, \code{\link[dplyr:summarise]{summarize}}, \code{\link[dplyr:count]{tally}}, \code{\link[dplyr:group_by]{ungroup}}}
 
-  \item{plyranges}{\code{\link[plyranges:ranges-anchor]{anchor}}, \code{\link[plyranges:ranges-anchor]{anchor_3p}}, \code{\link[plyranges:ranges-anchor]{anchor_5p}}, \code{\link[plyranges:ranges-anchor]{anchor_center}}, \code{\link[plyranges:ranges-anchor]{anchor_end}}, \code{\link[plyranges:ranges-anchor]{anchor_start}}, \code{\link[plyranges:ranges-overlaps]{find_overlaps}}, \code{\link[plyranges:ranges-overlaps]{find_overlaps_directed}}, \code{\link[plyranges]{stretch}}, \code{\link[plyranges:ranges-anchor]{unanchor}}}
+  \item{plyranges}{\code{\link[plyranges:ranges-anchor]{anchor}}, \code{\link[plyranges:ranges-anchor]{anchor_3p}}, \code{\link[plyranges:ranges-anchor]{anchor_5p}}, \code{\link[plyranges:ranges-anchor]{anchor_center}}, \code{\link[plyranges:ranges-anchor]{anchor_end}}, \code{\link[plyranges:ranges-anchor]{anchor_start}}, \code{\link[plyranges:ranges-count-overlaps]{count_overlaps}}, \code{\link[plyranges:ranges-count-overlaps]{count_overlaps_directed}}, \code{\link[plyranges:ranges-filter-overlaps]{filter_by_non_overlaps}}, \code{\link[plyranges:ranges-filter-overlaps]{filter_by_overlaps}}, \code{\link[plyranges:ranges-overlaps]{find_overlaps}}, \code{\link[plyranges:ranges-overlaps]{find_overlaps_directed}}, \code{\link[plyranges]{stretch}}, \code{\link[plyranges:ranges-anchor]{unanchor}}}
 }}