Uses of Class
org.expasy.mzjava.proteomics.ms.ident.ModificationMatch

Packages that use ModificationMatch

Package	Description
org.expasy.mzjava.proteomics.io.ms.ident
org.expasy.mzjava.proteomics.ms.ident

Uses of ModificationMatch in org.expasy.mzjava.proteomics.io.ms.ident

Methods in org.expasy.mzjava.proteomics.io.ms.ident with parameters of type ModificationMatch

Modifier and Type	Method and Description
protected void	PepXmlReader.resolveMod(ModificationMatch modMatch)

Uses of ModificationMatch in org.expasy.mzjava.proteomics.ms.ident

Methods in org.expasy.mzjava.proteomics.ms.ident that return ModificationMatch

Modifier and Type	Method and Description
ModificationMatch	PeptideMatch.addModificationMatch(int index, double modificationMass) Convenience method for adding a ModificationMatch.
ModificationMatch	PeptideMatch.addModificationMatch(int index, Modification modification) Convenience method for adding a ModificationMatch.
ModificationMatch	PeptideMatch.addModificationMatch(ModAttachment modAttachment, double modificationMass) Convenience method for adding a ModificationMatch.
ModificationMatch	PeptideMatch.addModificationMatch(ModAttachment modAttachment, Modification modification) Convenience method for adding a ModificationMatch.
ModificationMatch	UnresolvableModificationMatchException.getMatch()

Methods in org.expasy.mzjava.proteomics.ms.ident that return types with arguments of type ModificationMatch

Modifier and Type	Method and Description
List<ModificationMatch>	PeptideMatch.getModifications(int index, Set<ModAttachment> attachments) Returns a list containing all ModificationMatch for the residue at index that are attached by a ModAttachment contained in the attachments set.
List<ModificationMatch>	PeptideMatch.getModifications(Set<ModAttachment> attachments) Return a list containing all ModificationMatch for ModAttachment's in the attachments set.

Methods in org.expasy.mzjava.proteomics.ms.ident with parameters of type ModificationMatch

Modifier and Type	Method and Description
void	PeptideMatch.addModificationMatch(int index, ModificationMatch modificationMatch) Add a the modificationMatch to the side chain of residue at index
void	PeptideMatch.addModificationMatch(ModAttachment modAttachment, ModificationMatch modificationMatch) Add a the modificationMatch to either end of the this peptide match.
com.google.common.base.Optional<Modification>	ModificationMatchResolver.resolve(ModificationMatch modificationMatch)
com.google.common.base.Optional<Modification>	ModListModMatchResolver.resolve(ModificationMatch modMatch)

Constructors in org.expasy.mzjava.proteomics.ms.ident with parameters of type ModificationMatch

Constructor and Description
UnresolvableModificationMatchException(ModificationMatch match)