org.expasy.mzjava.proteomics.ms.spectrum

Class PepLibPeakAnnotation

java.lang.Object

org.expasy.mzjava.core.ms.spectrum.LibPeakAnnotation

org.expasy.mzjava.proteomics.ms.spectrum.PepLibPeakAnnotation

All Implemented Interfaces:

PeakAnnotation, Copyable<PeakAnnotation>

public class PepLibPeakAnnotation
extends LibPeakAnnotation

Class to store annotations of consensus peaks. It stores statistical information about the consensus peaks.

Version:

1

Author:

Oliver Horlacher

Constructor Summary

Constructors

Constructor and Description
PepLibPeakAnnotation(int mergedPeakCount, double mzStd, double intensityStd) Constructor
PepLibPeakAnnotation(int mergedPeakCount, double mzStd, double intensityStd, com.google.common.base.Optional<PepFragAnnotation> optFragmentAnnotation)
PepLibPeakAnnotation(PepLibPeakAnnotation src) Copy constructor

Method Summary

Methods

Modifier and Type	Method and Description
PepLibPeakAnnotation	copy() Creates and returns a copy of this object.
boolean	equals(Object o)
int	getCharge() Return this peaks charge
com.google.common.base.Optional<PepFragAnnotation>	getOptFragmentAnnotation()
int	hashCode()
String	toString()

Methods inherited from class org.expasy.mzjava.core.ms.spectrum.LibPeakAnnotation

getIntensityStd, getMergedPeakCount, getMzStd

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Constructor Detail

PepLibPeakAnnotation

public PepLibPeakAnnotation(PepLibPeakAnnotation src)

Copy constructor

Parameters:

src - the annotation to copy

PepLibPeakAnnotation

public PepLibPeakAnnotation(int mergedPeakCount,
                    double mzStd,
                    double intensityStd)

Constructor

Parameters:

mergedPeakCount - number of peaks merged into consensus peak

mzStd - standard deviation of mz values

intensityStd - standard deviation of intensities

PepLibPeakAnnotation

public PepLibPeakAnnotation(int mergedPeakCount,
                    double mzStd,
                    double intensityStd,
                    com.google.common.base.Optional<PepFragAnnotation> optFragmentAnnotation)

Method Detail

getOptFragmentAnnotation

public com.google.common.base.Optional<PepFragAnnotation> getOptFragmentAnnotation()

copy

public PepLibPeakAnnotation copy()

Description copied from interface: Copyable

Creates and returns a copy of this object. The precise meaning of "copy" may depend on the class of the object. The general intent is that, for any object x, the expression:

 x.copy() != x

will be true, and that the expression:

 x.copy().getClass() == x.getClass()

will be true, but these are not absolute requirements. While it is typically the case that:

 x.copy().equals(x)

will be true, this is not an absolute requirement.

Specified by:

copy in interface Copyable<PeakAnnotation>

Overrides:

copy in class LibPeakAnnotation

Returns:

a copy of this instance.

equals

public boolean equals(Object o)

Overrides:

equals in class LibPeakAnnotation

hashCode

public int hashCode()

Overrides:

hashCode in class LibPeakAnnotation

toString

public String toString()

Overrides:

toString in class LibPeakAnnotation

getCharge

public int getCharge()

Description copied from interface: PeakAnnotation

Return this peaks charge

Specified by:

getCharge in interface PeakAnnotation

Overrides:

getCharge in class LibPeakAnnotation

Returns:

this peaks charge