Uses of Class
com.compomics.util.experiment.identification.matches.ProteinMatch

Packages that use ProteinMatch
com.compomics.util.experiment.identification This package contains experiment classes related to identifications. 
com.compomics.util.experiment.identification.matches This package contains experiment classes releated to matches. e.g., pepties, proteins, modifications and spectra. 
 

Uses of ProteinMatch in com.compomics.util.experiment.identification
 

Fields in com.compomics.util.experiment.identification with type parameters of type ProteinMatch
protected  HashMap<String,ProteinMatch> Identification.proteinIdentification
          The identification results as a proteine match map, indexed by protein accession.
protected  HashMap<String,ArrayList<ProteinMatch>> Identification.proteinMap
          a map linking protein accessions to all their protein matches
 

Methods in com.compomics.util.experiment.identification that return types with arguments of type ProteinMatch
 HashMap<String,ProteinMatch> Identification.getProteinIdentification()
          Returns the identification results associated to the corresponding method in a protein identification map (accession -> protein match).
 HashMap<String,ArrayList<ProteinMatch>> Identification.getProteinMap()
          Returns a map of all the protein matches which can be ascribed to a protein indexed by its accession.
 

Methods in com.compomics.util.experiment.identification with parameters of type ProteinMatch
 void Identification.addProteinMatch(ProteinMatch proteinMatch)
          Add a protein identification to the identification results
 

Method parameters in com.compomics.util.experiment.identification with type arguments of type ProteinMatch
 void Identification.addProteinMatch(ArrayList<ProteinMatch> proteinMatches)
          Add protein identifications to the identification results
 

Uses of ProteinMatch in com.compomics.util.experiment.identification.matches
 

Methods in com.compomics.util.experiment.identification.matches that return ProteinMatch
 ProteinMatch ProteinMatch.getComplementMatch(ProteinMatch proteinMatch)
          returns a proteinMatch complementary to the protein match given Example: if the protein match was identified on proteins A, B and C; if the given match was identified on A; the method returns a protein match with B and C.
 

Methods in com.compomics.util.experiment.identification.matches with parameters of type ProteinMatch
 boolean ProteinMatch.contains(ProteinMatch proteinMatch)
          Returns a boolean indicating whether the protein match contains another set of theoretic proteins.
 ProteinMatch ProteinMatch.getComplementMatch(ProteinMatch proteinMatch)
          returns a proteinMatch complementary to the protein match given Example: if the protein match was identified on proteins A, B and C; if the given match was identified on A; the method returns a protein match with B and C.
 



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