write.tree {ape} | R Documentation |
This function writes in a file a tree in parenthetic format using the Newick (also known as New Hampshire) format.
write.tree(phy, file = "", append = FALSE, digits = 10, tree.names = FALSE)
phy |
an object of class "phylo" . |
file |
a file name specified by either a variable of mode character,
or a double-quoted string; if file = "" (the default) then the
tree is written on the standard output connection (i.e. the console). |
append |
a logical, if TRUE the tree is appended to the file
without erasing the data possibly existing in the file, otherwise
the file (if it exists) is overwritten (FALSE the default). |
digits |
a numeric giving the number of digits used for printing branch lengths. |
tree.names |
either a logical or a vector of mode character. If
TRUE then any tree names will be written prior to the tree on
each line. If character, specifies the name of "phylo"
objects which can be written to the file. |
The node labels and the root edge length, if available, are written in the file.
If tree.names == TRUE
then a variant of the Newick format is
written for which the name of a tree precedes the Newick format tree
(parentheses are eventually deleted beforehand).
a vector of mode character if file = ""
, none (invisible
`NULL') otherwise.
Emmanuel Paradis Emmanuel.Paradis@mpl.ird.fr and Daniel Lawson dan.lawson@bristol.ac.uk
Felsenstein, J. The Newick tree format. http://evolution.genetics.washington.edu/phylip/newicktree.html
Olsen, G. Interpretation of the "Newick's 8:45" tree format standard. http://evolution.genetics.washington.edu/phylip/newick_doc.html
read.tree
, read.nexus
,
write.nexus