diff --git a/vignettes/using-distances.Rmd b/vignettes/using-distances.Rmd index 3638aceaa..7a8885cfe 100644 --- a/vignettes/using-distances.Rmd +++ b/vignettes/using-distances.Rmd @@ -216,11 +216,11 @@ testTrees <- list( bigErr = ape::read.tree(text = '(a, (c, (((b, d), (f, h)), (e, g))));') ) VisualizeMatching(MutualClusteringInfo, testTrees$trueTree, testTrees$lackRes) -points(4, 7.5, pch = 2, cex = 3, col = "#E69F00") +points(4, 7.5, pch = 2, cex = 3, col = "#E69F00", xpd = NA) VisualizeMatching(MutualClusteringInfo, testTrees$trueTree, testTrees$smallErr) -points(4, 7.5, pch = 3, cex = 3, col = "#56B4E9") +points(4, 7.5, pch = 3, cex = 3, col = "#56B4E9", xpd = NA) VisualizeMatching(MutualClusteringInfo, testTrees$trueTree, testTrees$bigErr) -points(4, 7.5, pch = 4, cex = 3, col = "#009E73") +points(4, 7.5, pch = 4, cex = 3, col = "#009E73", xpd = NA) ``` Better trees plot vertically towards the "100% shared information" vertex.