provisional version of the new reorder.phylo()

[ape.git] / man / read.tree.Rd

diff --git a/man/read.tree.Rd b/man/read.tree.Rd
index 8ad6ed4db3ac76a88eadf748c420c9de192283d5..64bc829e02cf910f61f068b22ac13da378faea38 100644 (file)
--- a/man/read.tree.Rd
+++ b/man/read.tree.Rd
@@ -1,5 +1,6 @@
 \name{read.tree}
 \alias{read.tree}
+\alias{phylo}
 \title{Read Tree File in Parenthetic Format}
 \usage{
 read.tree(file = "", text = NULL, tree.names = NULL, skip = 0,
@@ -47,7 +48,7 @@ read.tree(file = "", text = NULL, tree.names = NULL, skip = 0,
   message is issued.
 
   If there are any characters preceding the first "(" in a line then
-  this is assigned to the name. This is returned when a "multiphylo"
+  this is assigned to the name. This is returned when a "multiPhylo"
   object is returned and \code{tree.names = NULL}.
 }
 \value{
@@ -82,10 +83,12 @@ read.tree(file = "", text = NULL, tree.names = NULL, skip = 0,
 
   Paradis, E. (2008) Definition of Formats for Coding Phylogenetic Trees
   in R. \url{http://ape.mpl.ird.fr/misc/FormatTreeR_28July2008.pdf}
+
+  Paradis, E. (2012) \emph{Analysis of Phylogenetics and Evolution with
+    R (Second Edition).} New York: Springer.
 }
 
-\author{Emmanuel Paradis \email{Emmanuel.Paradis@mpl.ird.fr} and Daniel
-  Lawson \email{dan.lawson@bristol.ac.uk}}
+\author{Emmanuel Paradis and Daniel Lawson \email{dan.lawson@bristol.ac.uk}}
 \seealso{
   \code{\link{write.tree}}, \code{\link{read.nexus}},
   \code{\link{write.nexus}}, \code{\link[base]{scan}} for the basic R