org.utgenome.util.sv
Class EnhancedGeneticVariation

java.lang.Object
  org.utgenome.util.sv.GeneticVariation
      org.utgenome.util.sv.EnhancedGeneticVariation

public class EnhancedGeneticVariation
extends GeneticVariation

Nested Class Summary

static class	EnhancedGeneticVariation.MutationPosition
static class	EnhancedGeneticVariation.MutationType mutation types (e.g., non-coding, missense, synonymous, non-sense, frame-shift, splice-site mutation, etc.)

Nested classes/interfaces inherited from class org.utgenome.util.sv.GeneticVariation

GeneticVariation.VariationType

Field Summary

AminoAcid	altAA
String	altCodon
String	geneName
EnhancedGeneticVariation.MutationPosition	mutationPosition
AminoAcid	refAA
String	refCodon
String	strand

Fields inherited from class org.utgenome.util.sv.GeneticVariation

chr, indelLength, refBase, start, variationType

Constructor Summary

EnhancedGeneticVariation(GeneticVariation v)

Method Summary

EnhancedGeneticVariation.MutationType

getMutationType()

Methods inherited from class org.utgenome.util.sv.GeneticVariation

getAltBase, getGenotype, setGenotype, toString

Methods inherited from class java.lang.Object

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

Field Detail

mutationPosition

public EnhancedGeneticVariation.MutationPosition mutationPosition

strand

public String strand

geneName

public String geneName

refAA

public AminoAcid refAA

altAA

public AminoAcid altAA

refCodon

public String refCodon

altCodon

public String altCodon

Constructor Detail

EnhancedGeneticVariation

public EnhancedGeneticVariation(GeneticVariation v)

Method Detail

getMutationType

public EnhancedGeneticVariation.MutationType getMutationType()