edu.mssm.crover.mutations.drivers
Class Mutation

java.lang.Object
  |
  +--edu.mssm.crover.mutations.drivers.Mutation
All Implemented Interfaces:
java.lang.Comparable

public final class Mutation
extends java.lang.Object
implements java.lang.Comparable


Field Summary
static short CHIMERA
           
static short DELETION
           
 java.lang.String descriptionURL
           
 GenericPosition genericPosition
           
static short INSERTION
           
 java.lang.String mutatedResidues
           
 java.lang.String mutationID
           
static short POINT_MUTATION
           
 int position
           
 short type
           
 java.lang.String wildResidues
           
 
Constructor Summary
Mutation()
           
Mutation(int _ob_a0, java.lang.String _ob_a1, short _ob_a2, java.lang.String _ob_a3, java.lang.String _ob_a4, java.lang.String _ob_a5)
           
 
Method Summary
 int compareTo(java.lang.Object o)
          Natural ordering of Mutation, by absolute position, then wildtype residues, than mutated residues.
 boolean equals(java.lang.Object o)
           
 AccessionCode getChMTAc()
           
 int getChMTEnd()
           
 java.lang.String getChMTEndRes()
           
 java.lang.String getChMTSeq()
           
 int getChMTStart()
           
 java.lang.String getChMTStartRes()
           
 int getChWTPEnd()
           
 java.lang.String getChWTPEndRes()
           
 java.lang.String getChWTPSeq()
           
 int getChWTPStart()
           
 java.lang.String getChWTPStartRes()
           
 GenericPosition getDefaultGenericPosition()
           
 java.lang.String getDescriptionURL()
           
 GenericPosition getGenericPosition()
           
 java.lang.String getMutatedResidues()
           
 java.lang.String getMutationID()
           
 int getPosition()
           
 java.lang.String getStringType()
           
 short getType()
           
 java.lang.String getWildTypeResidues()
           
 int hashCode()
           
 void setChMTAc(java.lang.String ac, java.lang.String db, java.lang.String organism)
           
 void setChMTEnd(int end)
           
 void setChMTEndRes(java.lang.String res)
           
 void setChMTSeq(java.lang.String seq)
           
 void setChMTStart(int start)
           
 void setChMTStartRes(java.lang.String res)
           
 void setChWTPEnd(int end)
           
 void setChWTPEndRes(java.lang.String res)
           
 void setChWTPSeq(java.lang.String seq)
           
 void setChWTPStart(int start)
           
 void setChWTPStartRes(java.lang.String res)
           
 void setGenericPosition(GenericPosition genericPosition)
           
 void setMutatedResidues(java.lang.String mr)
           
 void setPosition(int position)
           
 void setType(short t)
           
 void setWildTypeResidues(java.lang.String wtr)
           
 java.lang.String toString()
           
 
Methods inherited from class java.lang.Object
clone, finalize, getClass, notify, notifyAll, wait, wait, wait
 

Field Detail

POINT_MUTATION

public static final short POINT_MUTATION
See Also:
Constant Field Values

DELETION

public static final short DELETION
See Also:
Constant Field Values

INSERTION

public static final short INSERTION
See Also:
Constant Field Values

CHIMERA

public static final short CHIMERA
See Also:
Constant Field Values

position

public int position

descriptionURL

public java.lang.String descriptionURL

type

public short type

wildResidues

public java.lang.String wildResidues

mutatedResidues

public java.lang.String mutatedResidues

mutationID

public java.lang.String mutationID

genericPosition

public GenericPosition genericPosition
Constructor Detail

Mutation

public Mutation()

Mutation

public Mutation(int _ob_a0,
                java.lang.String _ob_a1,
                short _ob_a2,
                java.lang.String _ob_a3,
                java.lang.String _ob_a4,
                java.lang.String _ob_a5)
Method Detail

getPosition

public int getPosition()

setPosition

public void setPosition(int position)

getGenericPosition

public GenericPosition getGenericPosition()

getDefaultGenericPosition

public GenericPosition getDefaultGenericPosition()

setGenericPosition

public void setGenericPosition(GenericPosition genericPosition)

setType

public void setType(short t)

getType

public short getType()

getStringType

public java.lang.String getStringType()

setWildTypeResidues

public void setWildTypeResidues(java.lang.String wtr)

getWildTypeResidues

public java.lang.String getWildTypeResidues()

setMutatedResidues

public void setMutatedResidues(java.lang.String mr)

getMutatedResidues

public java.lang.String getMutatedResidues()

setChWTPStart

public void setChWTPStart(int start)

setChWTPEnd

public void setChWTPEnd(int end)

setChMTStart

public void setChMTStart(int start)

setChMTEnd

public void setChMTEnd(int end)

setChMTAc

public void setChMTAc(java.lang.String ac,
                      java.lang.String db,
                      java.lang.String organism)

setChWTPSeq

public void setChWTPSeq(java.lang.String seq)

setChMTSeq

public void setChMTSeq(java.lang.String seq)

setChMTStartRes

public void setChMTStartRes(java.lang.String res)

setChMTEndRes

public void setChMTEndRes(java.lang.String res)

setChWTPStartRes

public void setChWTPStartRes(java.lang.String res)

setChWTPEndRes

public void setChWTPEndRes(java.lang.String res)

getChWTPStart

public int getChWTPStart()

getChWTPEnd

public int getChWTPEnd()

getChMTStart

public int getChMTStart()

getChMTEnd

public int getChMTEnd()

getChMTAc

public AccessionCode getChMTAc()

getChWTPSeq

public java.lang.String getChWTPSeq()

getChWTPStartRes

public java.lang.String getChWTPStartRes()

getChWTPEndRes

public java.lang.String getChWTPEndRes()

getChMTSeq

public java.lang.String getChMTSeq()

getChMTStartRes

public java.lang.String getChMTStartRes()

getChMTEndRes

public java.lang.String getChMTEndRes()

toString

public java.lang.String toString()
Overrides:
toString in class java.lang.Object

getMutationID

public java.lang.String getMutationID()

getDescriptionURL

public java.lang.String getDescriptionURL()

equals

public boolean equals(java.lang.Object o)
Overrides:
equals in class java.lang.Object

hashCode

public int hashCode()
Overrides:
hashCode in class java.lang.Object

compareTo

public int compareTo(java.lang.Object o)
Natural ordering of Mutation, by absolute position, then wildtype residues, than mutated residues.

Specified by:
compareTo in interface java.lang.Comparable


Copyright @ 2003 Mount Sinai School of Medicine. All Rights Reserved.