Package org.biojavax.bio.phylo.io.nexus

Class TreesBlock.NewickTreeString

java.lang.Object

org.biojavax.bio.phylo.io.nexus.TreesBlock.NewickTreeString

Enclosing class:

TreesBlock

public static class TreesBlock.NewickTreeString
extends Object

A simple representation of a Newick tree as a single string.

Constructor Summary

Constructors

Constructor	Description
NewickTreeString()

Method Summary

Modifier and Type	Method	Description
String	getRootType()	See if the tree is rooted.
String	getTreeString()	Get the Newick string describing the tree.
boolean	isStarred()	Tests whether this tree has a star before it's name.
void	setRootType(String rootType)	Make the tree (un)rooted.
void	setStarred(boolean starred)	Sets whether this tree has a star before it's name.
void	setTreeString(String treeString)	Set the Newick string describing the tree.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

NewickTreeString

public NewickTreeString()

Method Detail

setRootType

public void setRootType(String rootType)

Make the tree (un)rooted.

Parameters:

rootType - 'U' for unrooted, 'R' for rooted, null for unsure.

setTreeString

public void setTreeString(String treeString)

Set the Newick string describing the tree.

setStarred

public void setStarred(boolean starred)

Sets whether this tree has a star before it's name.

Parameters:

starred - true if it has one.

isStarred

public boolean isStarred()

Tests whether this tree has a star before it's name.

Returns:

starred true if it has one.

getRootType

public String getRootType()

See if the tree is rooted.

Returns:

'U' for unrooted, 'R' for rooted, null for unsure.

getTreeString

public String getTreeString()

Get the Newick string describing the tree.

Returns:

the tree string.