public class Ms2Identification extends Identification
EXTENTION, longKeys, methodUsed, peptideIdentification, proteinIdentification, proteinMap, reference, serializationDirectory, spectrumIdentification, spectrumIdentificationMap, urParameters
Constructor and Description |
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Ms2Identification(String reference)
Constructor for MS2 identification.
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addAssumptions, addAssumptions, addMatchParameter, addPeptideMatchParameter, addProteinMatchParameter, addSpectrumMatch, addSpectrumMatches, addSpectrumMatchParameter, buildPeptidesAndProteins, buildPeptidesAndProteins, checkIdentificationDBTables, close, convert, establishConnection, getAssumptions, getAssumptions, getAssumptions, getDefaultReference, getFileName, getMatchParameter, getMatchType, getMethodUsed, getOrderedSpectrumFileNames, getPeptideIdentification, getPeptideMatch, getPeptideMatch, getPeptideMatchesIterator, getPeptideMatchesIterator, getPeptideMatchParameter, getPeptideMatchParameter, getProteinIdentification, getProteinMap, getProteinMatch, getProteinMatch, getProteinMatches, getProteinMatchesIterator, getProteinMatchesIterator, getProteinMatchParameter, getProteinMatchParameter, getPsmIterator, getPsmIterator, getSerializationDirectory, getSpectrumFiles, getSpectrumIdentification, getSpectrumIdentification, getSpectrumIdentificationMap, getSpectrumIdentificationSize, getSpectrumMatch, getSpectrumMatch, getSpectrumMatchParameter, getSpectrumMatchParameter, isDB, isUnique, loadAssumptions, loadAssumptions, loadPeptideMatches, loadPeptideMatches, loadPeptideMatchParameters, loadPeptideMatchParameters, loadProteinMatches, loadProteinMatches, loadProteinMatchParameters, loadProteinMatchParameters, loadSpectrumMatches, loadSpectrumMatches, loadSpectrumMatchParameters, loadSpectrumMatchParameters, matchExists, peptideDetailsInCache, proteinDetailsInCache, removeAssumptions, removeMatch, removePeptideMatch, removeProteinMatch, removeSpectrumMatch, restoreConnection, setDirectory, setIsDB, setOrderedListOfSpectrumFileNames, updateAssumptions, updatePeptideMatch, updatePeptideMatch, updatePeptideMatchParameter, updateProteinMatch, updateProteinMatchParameter, updateSpectrumMapping, updateSpectrumMatch, updateSpectrumMatchParameter
addUrParam, getParameterKey, getUrParam
public Ms2Identification(String reference)
reference
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