Read phylogenetic tree file
Tree = phytreeread(File)
[Tree, Boot]=
phytreeread(File)
File | Character vector or string specifying a Newick- or Nexus-formatted tree file (ASCII text file) name, a path and file name, or a URL pointing to a file. For the
Nexus tree format, only one tree from the first |
Tree |
|
Boot | Column vector of bootstrap values
for each tree node specified in
|
Tree = phytreeread(File)
The NEWICK tree format can be found at:
The NEXUS tree format can be found at:
Note
This implementation allows only binary trees. Non-binary trees are translated into a binary tree with extra branches of length 0.
[ returns Tree, Boot]=
phytreeread(File)Boot,
a column vector of bootstrap values for each tree node specified in File.
If File does not specify a bootstrap value
for a node, it returns a NaN value for that node. phytreeread considers
the following values in File to be bootstrap
values:
Values within square brackets ([])
after the branch or leaf node lengths (for Newick-formatted trees
only)
Values that appear instead of branch or leaf node labels (for both Newick- and Nexus-formatted trees)
tr = phytreeread('pf00002.tree')
Phylogenetic tree object with 33 leaves (32 branches)tr2 = phytreeread('pf00002.nex')Phylogenetic tree object with 33 leaves (32 branches)