From dfb19f3f9bf9474c0c1fe77a80002a7017dd4e81 Mon Sep 17 00:00:00 2001
From: Charles Plessy <charles.plessy@oist.jp>
Date: Wed, 25 Oct 2023 10:52:46 +0900
Subject: [PATCH] devtools::document

---
 man/flipStrandNames.Rd        | 8 ++++++++
 man/longestMatchesInTarget.Rd | 1 +
 man/mergeSeqLevels.Rd         | 1 +
 man/scaffoldByFlipAndMerge.Rd | 1 +
 man/strandNames.Rd            | 1 +
 5 files changed, 12 insertions(+)

diff --git a/man/flipStrandNames.Rd b/man/flipStrandNames.Rd
index 8a06f38..31af602 100644
--- a/man/flipStrandNames.Rd
+++ b/man/flipStrandNames.Rd
@@ -16,3 +16,11 @@ Returns the same class as its input.
 Takes a character vector of "strand names", reverses the order of its
 elements and flips the strand.
 }
+\seealso{
+Other scaffolding functions: 
+\code{\link{longestMatchesInTarget}()},
+\code{\link{mergeSeqLevels}()},
+\code{\link{scaffoldByFlipAndMerge}()},
+\code{\link{strandNames}()}
+}
+\concept{scaffolding functions}
diff --git a/man/longestMatchesInTarget.Rd b/man/longestMatchesInTarget.Rd
index 8ade1e9..f843279 100644
--- a/man/longestMatchesInTarget.Rd
+++ b/man/longestMatchesInTarget.Rd
@@ -43,6 +43,7 @@ exampleColinear3 |> longestMatchesInTarget(min.width = 0, min.matches = 1)
 }
 \seealso{
 Other scaffolding functions: 
+\code{\link{flipStrandNames}()},
 \code{\link{mergeSeqLevels}()},
 \code{\link{scaffoldByFlipAndMerge}()},
 \code{\link{strandNames}()}
diff --git a/man/mergeSeqLevels.Rd b/man/mergeSeqLevels.Rd
index 9a55dea..f748c39 100644
--- a/man/mergeSeqLevels.Rd
+++ b/man/mergeSeqLevels.Rd
@@ -65,6 +65,7 @@ Other modifier functions:
 \code{\link{swap}()}
 
 Other scaffolding functions: 
+\code{\link{flipStrandNames}()},
 \code{\link{longestMatchesInTarget}()},
 \code{\link{scaffoldByFlipAndMerge}()},
 \code{\link{strandNames}()}
diff --git a/man/scaffoldByFlipAndMerge.Rd b/man/scaffoldByFlipAndMerge.Rd
index d9d6f1e..a4b149d 100644
--- a/man/scaffoldByFlipAndMerge.Rd
+++ b/man/scaffoldByFlipAndMerge.Rd
@@ -29,6 +29,7 @@ scaffoldByFlipAndMerge(gr, g, drop = T)
 }
 \seealso{
 Other scaffolding functions: 
+\code{\link{flipStrandNames}()},
 \code{\link{longestMatchesInTarget}()},
 \code{\link{mergeSeqLevels}()},
 \code{\link{strandNames}()}
diff --git a/man/strandNames.Rd b/man/strandNames.Rd
index aa9263d..1f7a89b 100644
--- a/man/strandNames.Rd
+++ b/man/strandNames.Rd
@@ -28,6 +28,7 @@ strandNames(exampleColinear, query = TRUE)
 }
 \seealso{
 Other scaffolding functions: 
+\code{\link{flipStrandNames}()},
 \code{\link{longestMatchesInTarget}()},
 \code{\link{mergeSeqLevels}()},
 \code{\link{scaffoldByFlipAndMerge}()}