com.compomics.util.experiment.biology

Class MassGap

java.lang.Object

com.compomics.util.experiment.personalization.ExperimentObject

com.compomics.util.experiment.biology.MassGap

All Implemented Interfaces:

TagComponent, Serializable, Cloneable

public class MassGap
extends ExperimentObject
implements TagComponent

An undefined mass gap.

Author:

Marc

See Also:

Serialized Form

Constructor Summary

Constructors

Constructor and Description
MassGap(double value) Constructor.

Method Summary

Modifier and Type	Method and Description
String	asSequence() Returns the tag component as String like a peptide sequence.
Double	getMass() Returns the mass of the tag component.
boolean	isSameAs(TagComponent anotherCompontent, SequenceMatchingPreferences sequenceMatchingPreferences) Indicates whether another component is the same as the component of interest.
boolean	isSameSequenceAndModificationStatusAs(TagComponent anotherCompontent, SequenceMatchingPreferences sequenceMatchingPreferences) Indicates whether another component is the same as the component of interest.
void	setMass(double value) Sets the mass of the gap.

Methods inherited from class com.compomics.util.experiment.personalization.ExperimentObject

addUrParam, getParameterKey, getUrParam

Methods inherited from class java.lang.Object

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

Constructor Detail

MassGap

public MassGap(double value)

Constructor.

Parameters:

value - the value of the mass gap

Method Detail

setMass

public void setMass(double value)

Sets the mass of the gap.

Parameters:

value - the mass of the gap

asSequence

public String asSequence()

Description copied from interface: TagComponent

Returns the tag component as String like a peptide sequence. Note: this does not include modifications.

Specified by:

asSequence in interface TagComponent

Returns:

the tag component as String like a peptide sequence

getMass

public Double getMass()

Description copied from interface: TagComponent

Returns the mass of the tag component.

Specified by:

getMass in interface TagComponent

Returns:

the mass of the tag component

isSameAs

public boolean isSameAs(TagComponent anotherCompontent,
                        SequenceMatchingPreferences sequenceMatchingPreferences)

Description copied from interface: TagComponent

Indicates whether another component is the same as the component of interest.

Specified by:

isSameAs in interface TagComponent

Parameters:

anotherCompontent - another component

sequenceMatchingPreferences - the sequence matching preferences

Returns:

a boolean indicating whether the other component is the same as the one of interest

isSameSequenceAndModificationStatusAs

public boolean isSameSequenceAndModificationStatusAs(TagComponent anotherCompontent,
                                                     SequenceMatchingPreferences sequenceMatchingPreferences)

Description copied from interface: TagComponent

Indicates whether another component is the same as the component of interest.

Specified by:

isSameSequenceAndModificationStatusAs in interface TagComponent

Parameters:

anotherCompontent - another component

sequenceMatchingPreferences - the sequence matching preferences

Returns:

a boolean indicating whether the other component is the same as the one of interest