NucleotideCompound

java.lang.Object

org.biojava.nbio.core.sequence.template.AbstractCompound

org.biojava.nbio.core.sequence.compound.NucleotideCompound

All Implemented Interfaces:: ComplementCompound, Compound

public class NucleotideCompound extends AbstractCompound implements ComplementCompound

Author:: Scooter Willis, Andy Yates

Constructor Summary

Constructors

Constructor

Description

NucleotideCompound(String base, CompoundSet<NucleotideCompound> compoundSet, String complementStr)

NucleotideCompound(String base, CompoundSet<NucleotideCompound> compoundSet, String complementStr, NucleotideCompound[] constituents)
Method Summary

Modifier and Type

Method

Description

boolean

equals(Object obj)

boolean

equalsIgnoreCase(Compound compound)

ComplementCompound

getComplement()

Set<NucleotideCompound>

getConsituents()

Deprecated.
replaced with getConstituents() due to typographical error

Set<NucleotideCompound>

getConstituents()

String

getShortName()

int

hashCode()

boolean

isAmbiguous()

Methods inherited from class org.biojava.nbio.core.sequence.template.AbstractCompound
getBase, getDescription, getLongName, getMolecularWeight, getUpperedBase, setDescription, setLongName, setMolecularWeight, setShortName, toString

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

Methods inherited from interface org.biojava.nbio.core.sequence.template.Compound
getDescription, getLongName, getMolecularWeight, setDescription, setLongName, setMolecularWeight, setShortName

Constructor Details
- NucleotideCompound
  
  public NucleotideCompound(String base, CompoundSet<NucleotideCompound> compoundSet, String complementStr)
- NucleotideCompound
  
  public NucleotideCompound(String base, CompoundSet<NucleotideCompound> compoundSet, String complementStr, NucleotideCompound[] constituents)
Method Details
- getShortName
  
  public String getShortName()
  
  Specified by:
  
  getShortName in interface Compound
  
  Overrides:
  
  getShortName in class AbstractCompound
- getComplement
  
  public ComplementCompound getComplement()
  
  Specified by:
  
  getComplement in interface ComplementCompound
- equals
  
  public boolean equals(Object obj)
  
  Overrides:
  
  equals in class AbstractCompound
- hashCode
  
  public int hashCode()
  
  Overrides:
  
  hashCode in class AbstractCompound
- equalsIgnoreCase
  
  public boolean equalsIgnoreCase(Compound compound)
  
  Specified by:
  
  equalsIgnoreCase in interface Compound
  
  Overrides:
  
  equalsIgnoreCase in class AbstractCompound
- getConstituents
  
  public Set<NucleotideCompound> getConstituents()
- getConsituents
  
  @Deprecated public Set<NucleotideCompound> getConsituents()
  
  Deprecated.
  replaced with getConstituents() due to typographical error
- isAmbiguous
  
  public boolean isAmbiguous()