Uses of Package
com.compomics.util.experiment.identification

Packages that use com.compomics.util.experiment.identification
com.compomics.util.experiment This package contains MSExperiment main class. 
com.compomics.util.experiment.identification This package contains experiment classes related to identifications. 
com.compomics.util.experiment.identification.advocates This package contains experiment classes related to modeling identifications. 
com.compomics.util.experiment.identification.identifications This package contains experiment classes related to MS/MS identifications. 
com.compomics.util.experiment.identification.matches This package contains experiment classes releated to matches. e.g., pepties, proteins, modifications and spectra. 
com.compomics.util.gui.spectrum This package contains GUI classes related to Spectrum and Chromatogram visualization. 
 

Classes in com.compomics.util.experiment.identification used by com.compomics.util.experiment
Identification
          This class contains identification results.
SequenceDataBase
          This class models a protein database used for peptide/protein identification (like uniprot)
 

Classes in com.compomics.util.experiment.identification used by com.compomics.util.experiment.identification
Advocate
          The advocate of a hit can be a search engine, a rescoring algorithm, etc.
AdvocateFactory
          This factory will provide adapted advocates when requested.
SpectrumAnnotator.SpectrumAnnotationMap
          A support class for "hiding" the HashMap inside an object for easier use in other methods.
 

Classes in com.compomics.util.experiment.identification used by com.compomics.util.experiment.identification.advocates
Advocate
          The advocate of a hit can be a search engine, a rescoring algorithm, etc.
 

Classes in com.compomics.util.experiment.identification used by com.compomics.util.experiment.identification.identifications
Identification
          This class contains identification results.
 

Classes in com.compomics.util.experiment.identification used by com.compomics.util.experiment.identification.matches
PeptideAssumption
          This object will models the assumption made by an advocate.
 

Classes in com.compomics.util.experiment.identification used by com.compomics.util.gui.spectrum
SpectrumAnnotator.SpectrumAnnotationMap
          A support class for "hiding" the HashMap inside an object for easier use in other methods.
 



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