Class PhyloXMLClade

java.lang.Object

org.episteme.natural.biology.loaders.phyloxml.PhyloXMLClade

public class PhyloXMLClade
extends Object

Represents a clade (node) in a PhyloXML document.

Constructor Summary

Constructors

Constructor	Description
PhyloXMLClade()

Method Summary

Modifier and Type	Method	Description
void	addChild(PhyloXMLClade child)
void	addConfidence(String type, Double value)
Double	getBranchLength()
List<PhyloXMLClade>	getChildren()
Map<String,Double>	getConfidenceValues()
PhyloXMLEvents	getEvents()
String	getName()
PhyloXMLSequenceInfo	getSequence()
PhyloXMLTaxonomy	getTaxonomy()
void	setBranchLength(Double branchLength)
void	setEvents(PhyloXMLEvents events)
void	setName(String name)
void	setSequence(PhyloXMLSequenceInfo sequence)
void	setTaxonomy(PhyloXMLTaxonomy taxonomy)

Methods inherited from class Object

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

Constructor Details

PhyloXMLClade

public PhyloXMLClade()

Method Details

getName

public String getName()

setName

public void setName(String name)

getBranchLength

public Double getBranchLength()

setBranchLength

public void setBranchLength(Double branchLength)

addConfidence

public void addConfidence(String type,
 Double value)

getConfidenceValues

public Map<String,Double> getConfidenceValues()

getTaxonomy

public PhyloXMLTaxonomy getTaxonomy()

setTaxonomy

public void setTaxonomy(PhyloXMLTaxonomy taxonomy)

getSequence

public PhyloXMLSequenceInfo getSequence()

setSequence

public void setSequence(PhyloXMLSequenceInfo sequence)

getEvents

public PhyloXMLEvents getEvents()

setEvents

public void setEvents(PhyloXMLEvents events)

getChildren

public List<PhyloXMLClade> getChildren()

addChild

public void addChild(PhyloXMLClade child)