+ CHANGES IN APE VERSION 2.2-2
+
+
+NEW FEATURES
+
+ o dist.gene() has been substantially improved and gains an option
+ 'pairwise.deletion'.
+
+
+BUG FIXES
+
+ o prop.part() failed with a single tree with the default option
+ 'check.labels = TRUE'.
+
+ o summary.DNAbin() failed to display correctly the summary of
+ sequence lengths with lists of sequences of 10,000 bases or more
+ (because summary.default uses 4 significant digits by default).
+
+ o read.nexus() failed to read a file with a single tree with line
+ breaks in the Newick string.
+
+ o del.gaps() returned a list of empty sequences when there were no
+ gaps.
+
+
+OTHER CHANGES
+
+ o The data sets bird.orders and bird.families are now stored as
+ Newick strings; i.e., the command data(bird.orders) calls
+ read.tree().
+
+
+
CHANGES IN APE VERSION 2.2-1
o read.nexus() failed to read a file with a single tree and no
translation of tip labels.
+ o read.nexus() failed to place correctly tip labels when reading
+ a single tree with no edge lengths.
+
+ o A bug was fixed in sh.test().
+
OTHER CHANGES
OTHER CHANGES
- o The code of mlphylo() has almost entirely rewritten, and should
- be much stabler. The options have been also greatly simplified
- (see ?mlphylo and ?DNAmodel for details).
+ o The code of mlphylo() has been almost entirely rewritten, and
+ should be much stabler. The options have been also greatly
+ simplified (see ?mlphylo and ?DNAmodel for details).
o The internal function nTips has been renamed klastorin_nTips.