Uses of Class
uk.ac.ebi.jmzidml.model.mzidml.Identifiable

Packages that use Identifiable
uk.ac.ebi.jmzidml.model   
uk.ac.ebi.jmzidml.model.mzidml   
 

Uses of Identifiable in uk.ac.ebi.jmzidml.model
 

Subclasses of Identifiable in uk.ac.ebi.jmzidml.model
 class AbstractIdentifiableParamGroup
           
 

Uses of Identifiable in uk.ac.ebi.jmzidml.model.mzidml
 

Subclasses of Identifiable in uk.ac.ebi.jmzidml.model.mzidml
 class AbstractContact
          A contact is either a person or an organization.
 class AnalysisSoftware
          The software used for performing the analyses.
 class BibliographicReference
          Represents bibliographic references.
 class DBSequence
          A database sequence from the specified SearchDatabase (nucleic acid or amino acid).
 class Enzyme
          The details of an individual cleavage enzyme should be provided by giving a regular expression or a CV term if a "standard" enzyme cleavage has been performed.
 class ExternalData
          Data external to the XML instance document.
 class MassTable
          The masses of residues used in the search.
 class Measure
          References to CV terms defining the measures about product ions to be reported in SpectrumIdentificationItem
 class MzIdentML
          The upper-most hierarchy level of mzIdentML with sub-containers for example describing software, protocols and search results (spectrum identifications or protein detection results).
 class Organization
          Organizations are entities like companies, universities, government agencies.
 class Peptide
          One (poly)peptide (a sequence with modifications).
 class PeptideEvidence
          PeptideEvidence links a specific Peptide element to a specific position in a DBSequence.
 class Person
          A person's name and contact details.
 class ProteinAmbiguityGroup
          A set of logically related results from a protein detection, for example to represent conflicting assignments of peptides to proteins.
 class ProteinDetection
          An Analysis which assembles a set of peptides (e.g.
 class ProteinDetectionHypothesis
          A single result of the ProteinDetection analysis (i.e.
 class ProteinDetectionList
          The protein list resulting from a protein detection process.
 class ProteinDetectionProtocol
          The parameters and settings of a ProteinDetection process.
 class ProtocolApplication
          The use of a protocol with the requisite Parameters and ParameterValues.
 class Provider
          The provider of the document in terms of the Contact and the software the produced the document instance.
 class Sample
          A description of the sample analysed by mass spectrometry using CVParams or UserParams.
 class SearchDatabase
          A database for searching mass spectra.
 class SourceFile
          A file from which this mzIdentML instance was created.
 class SpectraData
          A data set containing spectra data (consisting of one or more spectra).
 class SpectrumIdentification
          An Analysis which tries to identify peptides in input spectra, referencing the database searched, the input spectra, the output results and the protocol that is run.
 class SpectrumIdentificationItem
          An identification of a single (poly)peptide, resulting from querying an input spectra, along with the set of confidence values for that identification.
 class SpectrumIdentificationList
          Represents the set of all search results from SpectrumIdentification.
 class SpectrumIdentificationProtocol
          The parameters and settings of a SpectrumIdentification analysis.
 class SpectrumIdentificationResult
          All identifications made from searching one spectrum.
 class TranslationTable
          The table used to translate codons into nucleic acids e.g.
 



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