UnifracTaxon

java.lang.Object

edu.msu.cme.rdp.taxatree.Node

edu.msu.cme.rdp.taxatree.Taxon

edu.msu.cme.rdp.multicompare.taxon.MCTaxon

edu.msu.cme.rdp.unifrac.UnifracTaxon

public class UnifracTaxon extends MCTaxon

Field Summary

Fields inherited from class edu.msu.cme.rdp.multicompare.taxon.MCTaxon
Count_Array_size, sampleCountMap

Fields inherited from class edu.msu.cme.rdp.taxatree.Taxon
ROOT_TAXON

Fields inherited from class edu.msu.cme.rdp.taxatree.Node
taxid
Constructor Summary

Constructors

Constructor

Description

UnifracTaxon(int taxid, String name, String rank, float bl)

UnifracTaxon(int taxid, String name, String rank, float bl, boolean unclassified)

UnifracTaxon(MCTaxon taxon, float bl)
Method Summary

Modifier and Type

Method

Description

void

addSampleCount(MCSample sample, double count)

boolean

containsSample(MCSample sample)

float

getBl()

void

resetSamples()

void

resetSamples(List<UnifracTreeBuilder.UnifracSample> samplePool)

void

setSampleCount(MCSample sample, double count)

Methods inherited from class edu.msu.cme.rdp.multicompare.taxon.MCTaxon
addSequence, getCopyCorrectedCount, getCount, getLineage, getSamples, getSequences, incCount, incCount, setLineage

Methods inherited from class edu.msu.cme.rdp.taxatree.Taxon
getName, getRank, getTaxid, getUnclassifiedId, isUnclassified

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Details
- UnifracTaxon
  
  public UnifracTaxon(int taxid, String name, String rank, float bl)
- UnifracTaxon
  
  public UnifracTaxon(int taxid, String name, String rank, float bl, boolean unclassified)
- UnifracTaxon
  
  public UnifracTaxon(MCTaxon taxon, float bl)
Method Details
- getBl
  
  public float getBl()
- containsSample
  
  public boolean containsSample(MCSample sample)
- resetSamples
  
  public void resetSamples()
- setSampleCount
  
  public void setSampleCount(MCSample sample, double count)
- addSampleCount
  
  public void addSampleCount(MCSample sample, double count)
- resetSamples
  
  public void resetSamples(List<UnifracTreeBuilder.UnifracSample> samplePool)