get (phytree) - Retrieve information about phylogenetic tree object

Syntax

Arguments

Tree	Phytree object created with the function phytree.
Name	Property name for a phytree object.

Description

[Value1, Value2,...] = get(Tree, 'Property1','Property2',...) returns the specified properties from a phytree object (Tree).

Properties for a phytree object are listed in the following table.

Property	Description
NumLeaves	Number of leaves
NumBranches	Number of branches
NumNodes	Number of nodes (NumLeaves + NumBranches)
Pointers	Branch to leaf/branch connectivity list
Distances	Edge length for every leaf/branch
LeafNames	Names of the leaves
BranchNames	Names of the branches
NodeNames	Names of all the nodes

get(Tree) displays all property names and their current values for a phytree object (Tree).

V = get(Tree) returns a structure where each field name is the name of a property of a phytree object (Tree) and each field contains the value of that property.

Examples

1. Read in a phylogenetic tree from a file.

   tr = phytreeread('pf00002.tree')
   
   Phylogenetic tree object with 33 leaves (32 branches)

2. Get the names of the leaves.

   protein_names = get(tr,'LeafNames')
   
   protein_names = 
   
       'Q9YHC6_RANRI/126-382'
       'VIPR1_RAT/140-397'
       'VIPR_CARAU/100-359'
        ...

See Also

getbyname | phytree | phytreeread | select

How To

• phytree object

© 1984-2012- The MathWorks, Inc.    -   Site Help   -   Patents   -   Trademarks   -   Privacy Policy   -   Preventing Piracy   -   RSS