+ CHANGES IN APE VERSION 3.0-7
+
+
+NEW FEATURES
+
+ o pic() gains an option 'rescaled.tree = FALSE' to return the tree
+ with its branch lengths rescaled for the PICs calculation.
+
+
+BUG FIXES
+
+ o drop.tip() shuffled node labels on some trees.
+
+
+
CHANGES IN APE VERSION 3.0-6
o A bug was fixed in phymltest(): the executable couldn't be found
in some cases.
- o Three bug have been fixed in ace(): computing the likelihood of
+ o Three bugs have been fixed in ace(): computing the likelihood of
ancestral states of discrete characters failed, custom models
did not work, and the function failed with a null gradient (a
warning message is now returned; this latter bug was also
present in yule.cov() as well and is now fixed).
- o pic() hanged out when missing data were present: a message error
- is now returned.
+ o pic() hanged out when missing data were present: an error is now
+ returned.
o A small bug was fixed in dist.dna() where the gamma correction
was not always correctly dispatched.
DNA sequences by specifying model = "raw".
o dist.phylo() has a new option `full' to possibly compute the
- distances among all tips and nodes of the tree. The default if
+ distances among all tips and nodes of the tree. The default is
`full = FALSE'.