Opening the Phytreetool GUI :: Phylogenetic Analysis (Bioinformatics Toolbox)

Bioinformatics Toolbox

Opening the Phytreetool GUI

The Phylogenetic Tree Tool can read data from Newick and ClustalW tree formatted files.

This procedure uses the phylogenetic tree data stored in the file pf00002.tree as an example. The data was retrieved from the protein family (PFAM) Web database and saved to a file using the accession number PF00002 and the function gethmmtree.

Create a phytree object. For example, to create a phytree object from tree data in the file pf00002.tree, type
```
tr= phytreeread('pf00002.tree')
```
MATLAB creates a phytree object.
```
Phylogenetic tree object with 37 leaves (36 branches)
```
Open the Phylogenetic Tree Tool and draw a phylogenetic tree.
```
phytreetool(tr)
```
The Phylogenetic Tree Tool window opens.

Alternatively, if you do not have to give the phytreetool function and argument, the Select Phylogenetic Tree dialog opens. Select a Newick formatted file and then click Open.
Select a command from the menu or toolbar.

Phylogenetic Tree Tool Reference

File Menu