+ CHANGES IN APE VERSION 3.0-2
+
+
+NEW FEATURES
+
+ o The new function alex (alignment explorator) zooms in a DNA
+ alignment and opens the result in a new window.
+
+
+BUG FIXES
+
+ o compute.brtime() did not completely randomized the order of the
+ branching times.
+
+ o write.nexus() did not work correctly with rooted trees (thanks
+ to Matt Johnson for the fix).
+
+ o mltt.plot(, backward = FALSE) did not set the x-axis correctly.
+
+ o A bug was introduced in prop.clades() with ape 3.0.
+
+ o mantel.test() printed a useless warning message.
+
+ o plot.phylo(, direction = "downward") ignored 'y.lim'.
+
+ o is.monophyletic() did not work correctly if 'tips' was not stored
+ as integers
+
+
+
+ CHANGES IN APE VERSION 3.0-1
+
+
+NEW FEATURES
+
+ o dist.dna() has two new models: "indel" and "indelblock".
+
+ o bind.tree() now accepts 'position' > 0 when the trees have no
+ banch length permitting to create a node in 'x' when grafting
+ 'y' (see ?bind.tree for details).
+
+
+BUG FIXES
+
+ o cophyloplot( , rotate = TRUE) made R hanged after a few clicks.
+ Also the tree is no more plotted twice.
+
+ o read.GenBank() has been updated to work with EFetch 2.0.
+
+ o unroot() on trees in "pruningwise" order did not respect this
+ attribute.
+
+
+
CHANGES IN APE VERSION 3.0