com.compomics.util.experiment.identification.identifications

Class Ms2Identification

java.lang.Object

com.compomics.util.experiment.personalization.ExperimentObject

com.compomics.util.experiment.identification.Identification

com.compomics.util.experiment.identification.identifications.Ms2Identification

All Implemented Interfaces:

Serializable, Cloneable

public class Ms2Identification
extends Identification

This class models an MS2 Identification.

Author:

Marc Vaudel

See Also:

Serialized Form

Field Summary

Fields inherited from class com.compomics.util.experiment.identification.Identification

dbDirectory, methodUsed, peptideIdentification, proteinIdentification, proteinMap, reference, spectrumIdentificationMap

Constructor Summary

Constructors

Constructor and Description
Ms2Identification(String reference) Constructor for MS2 identification.

Method Summary

Methods inherited from class com.compomics.util.experiment.identification.Identification

addAssumptions, addAssumptions, addPeptideMatchParameter, addProteinMatchParameter, addRawAssumptions, addSpectrumMatch, addSpectrumMatches, addSpectrumMatchParameter, buildPeptidesAndProteins, buildPeptidesAndProteins, close, establishConnection, getAssumptions, getAssumptions, getDatabaseDirectory, getDefaultReference, getIdentificationDB, getMatchType, getMethodUsed, getOrderedSpectrumFileNames, getPeptideIdentification, getPeptideMatch, getPeptideMatch, getPeptideMatchesIterator, getPeptideMatchesIterator, getPeptideMatchParameter, getPeptideMatchParameter, getProteinIdentification, getProteinMap, getProteinMatch, getProteinMatch, getProteinMatches, getProteinMatchesIterator, getProteinMatchesIterator, getProteinMatchParameter, getProteinMatchParameter, getPsmIterator, getPsmIterator, getPsmIterator, getPsmIterator, getPsmIterator, getPsmIterator, getRawAssumptions, getRawAssumptions, getSpectrumFiles, getSpectrumIdentification, getSpectrumIdentificationMap, getSpectrumIdentificationSize, getSpectrumMatch, getSpectrumMatch, getSpectrumMatchParameter, getSpectrumMatchParameter, isConnectionActive, isUniqueInDatabase, loadAssumptions, loadAssumptions, loadPeptideMatches, loadPeptideMatches, loadPeptideMatchParameters, loadPeptideMatchParameters, loadProteinMatches, loadProteinMatches, loadProteinMatchParameters, loadProteinMatchParameters, loadRawAssumptions, loadSpectrumMatches, loadSpectrumMatches, loadSpectrumMatchParameters, loadSpectrumMatchParameters, matchExists, peptideDetailsInCache, proteinDetailsInCache, removeAssumptions, removePeptideMatch, removeProteinMatch, removeRawAssumptions, removeSpectrumMatch, restoreConnection, setOrderedListOfSpectrumFileNames, updateAssumptions, updatePeptideMatch, updatePeptideMatch, updatePeptideMatchParameter, updateProteinMatch, updateProteinMatchParameter, updateRawAssumptions, updateSpectrumMatch, updateSpectrumMatchParameter

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

Ms2Identification

public Ms2Identification(String reference)

Constructor for MS2 identification.

Parameters:

reference - the reference