+ CHANGES IN APE VERSION 2.6-3
+
+
+BUG FIXES
+
+ o as.hclust.phylo() now returns an error with unrooted trees.
+
+
+
CHANGES IN APE VERSION 2.6-2
NEW FEATURES
+ o Two new functions, pic.ortho and varCompPhylip, implements the
+ orthonormal contrasts of Felsenstein (2008, Am Nat, 171:713). The
+ second function requires Phylip to be installed on the computer.
+
o bd.ext() has a new option conditional = TRUE to use probabilities
conditioned on no extinction for the taxonomic data.
+BUG FIXES
+
+ o write.tree() failed to output correctly tree names.
+
+ o dist.nodes() returned duplicated column(s) with unrooted and/or
+ multichotomous trees.
+
+ o mcmc.popsize() terminated unexpectedly if the progress bar was
+ turned off.
+
+ o prop.part(x) made R frozen if 'x' is of class "multiPhylo".
+
+ o Compilation under Mandriva failed (thanks to Jos Käfer for the fix).
+
+ o drop.tip() shuffled tip labels with subtree = TRUE or trim.internal
+ = FALSE.
+
+ o Objects returned by as.hclust.phylo() failed when analysed with
+ cutree() or rect.hclust().
+
+ o write.tree() did not output correctly node labels (thanks to Naim
+ Matasci and Jeremy Beaulieu for the fix).
+
+ o ace(type = "discrete") has been improved thanks to Naim Marasci and
+ Jeremy Beaulieu.
+
+
CHANGES IN APE VERSION 2.6-1
NEW FEATURES
- o The new speciesTree calculates the species tree from a set of gene
- trees. Several methods are available including maximum tree and
- shallowest divergence tree.
+ o The new function speciesTree calculates the species tree from a set
+ of gene trees. Several methods are available including maximum tree
+ and shallowest divergence tree.
BUG FIXES
projects / ape.git / blobdiff