+ CHANGES IN APE VERSION 2.3-1
+
+
+BUG FIXES
+
+ o dist.gene() failed on most occasions with the default
+ pairwise.deletion = FALSE.
+
+
+
+ CHANGES IN APE VERSION 2.3
+
+
+NEW FEATURES
+
+ o The new functions CADM.global and CADM.post, contributed by
+ Pierre Legendre, test the congruence among several distance
+ matrices.
+
+ o The new function yule.time fits a user-defined time-dependent
+ Yule model by maximum likelihood.
+
+ o The new function makeNodeLabel creates and/or modifies node
+ labels in a flexible way.
+
+ o read.tree() and write.tree() have been modified so that they can
+ handle individual tree names.
+
+ o plot.phylo() has a new argument 'edge.lty' that specifies the
+ types of lines used for the edges (plain, dotted, dashed, ...)
+
+ o phymltest() has been updated to work with PhyML 3.0.1.
+
+
+BUG FIXES
+
+ o drop.tip() shuffled tip labels in some cases.
+
+ o drop.tip() did not handle node.label correctly.
+
+ o is.ultrametric() now checks the ordering of the edge matrix.
+
+ o ace() sometimes returned negative values of likelihoods of
+ ancestral states (thanks to Dan Rabosky for solving this long
+ lasting bug).
+
+
+OTHER CHANGES
+
+ o The data set xenarthra has been removed.
+
+
+
CHANGES IN APE VERSION 2.2-4
BUG FIXES