org.expasy.mzjava.proteomics.io.ms.ident.pepxml

Class ModificationMap

java.lang.Object

org.expasy.mzjava.proteomics.io.ms.ident.pepxml.ModificationMap

public class ModificationMap
extends Object

Author:

fnikitin Date: 2/16/14

Constructor Summary

Constructors

Constructor and Description
ModificationMap()

Method Summary

Methods

Modifier and Type	Method and Description
void	add(MsmsPipelineAnalysis.MsmsRunSummary.SearchSummary.AminoacidModification aminoacidModification)
Map<AminoAcid,Set<AminoacidModificationHashable>>	getAminoacidModificationMap()
Set<AminoacidModificationHashable>	getAminoacidModificationSet(AminoAcid aa)
com.google.common.base.Optional<MsmsPipelineAnalysis.MsmsRunSummary.SearchSummary.TerminalModification>	getCterminalModification()
com.google.common.base.Optional<MsmsPipelineAnalysis.MsmsRunSummary.SearchSummary.TerminalModification>	getNterminalModification()
static void	loadModifs(Collection<MsmsPipelineAnalysis.MsmsRunSummary> runSummaryCollection, Map<URI,ModificationMap> modificationMapMap)
void	setTerminal(MsmsPipelineAnalysis.MsmsRunSummary.SearchSummary.TerminalModification terminalModification)

Methods inherited from class java.lang.Object

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

Constructor Detail

ModificationMap

public ModificationMap()

Method Detail

add

public void add(MsmsPipelineAnalysis.MsmsRunSummary.SearchSummary.AminoacidModification aminoacidModification)

setTerminal

public void setTerminal(MsmsPipelineAnalysis.MsmsRunSummary.SearchSummary.TerminalModification terminalModification)

getNterminalModification

public com.google.common.base.Optional<MsmsPipelineAnalysis.MsmsRunSummary.SearchSummary.TerminalModification> getNterminalModification()

getCterminalModification

public com.google.common.base.Optional<MsmsPipelineAnalysis.MsmsRunSummary.SearchSummary.TerminalModification> getCterminalModification()

getAminoacidModificationMap

public Map<AminoAcid,Set<AminoacidModificationHashable>> getAminoacidModificationMap()

getAminoacidModificationSet

public Set<AminoacidModificationHashable> getAminoacidModificationSet(AminoAcid aa)

loadModifs

public static void loadModifs(Collection<MsmsPipelineAnalysis.MsmsRunSummary> runSummaryCollection,
              Map<URI,ModificationMap> modificationMapMap)