Bioinformatics Toolbox™

phytreewrite - Write phylogenetic tree object to Newick-formatted file

Syntax

phytreewrite('File', Tree) phytreewrite(Tree)

Arguments

`File`	Newick-formatted file. Enter either a file name or a path and file name supported by your operating system (ASCII text file).
`Tree`	Phylogenetic tree object, either created with `phytree` (object constructor function) or imported using the `phytreeread` function.

Description

phytreewrite('File', Tree) copies the contents of a phytree object from the MATLAB^® workspace to a file. Data in the file uses the Newick format for describing trees.

The Newick tree format can be found at

http://evolution.genetics.washington.edu/phylip/newicktree.html

phytreewrite(Tree) opens the Save Phylogenetic Tree As dialog box for you to enter or select a file name.

Examples

Read tree data from a Newick-formatted file.

tr = phytreeread('pf00002.tree')

Remove all the mouse proteins

ind = getbyname(tr,'mouse');
tr = prune(tr,ind);
view(tr)

Write pruned tree data to a file.

phytreewrite('newtree.tree', tr)

phytreewrite - Write phylogenetic tree object to Newick-formatted file

Syntax

Arguments

Description

Examples

See Also