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See:
Description
Interface Summary | |
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Advocate | The advocate of a hit can be a search engine, a re-scoring algorithm, etc. |
Class Summary | |
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AdvocateFactory | This factory will provide adapted advocates when required. |
FastaIndex | This class contains the index of a FASTA file. |
Identification | This class contains identification results. |
IdentificationDB | This class uses a database to manage identification matches. |
IdentificationMatch | This is an abstract class for an identification match. |
IdentificationMethod | This class will contain all methods used to obtain identifications. |
NeutralLossesMap | This class contains the informations relative to the accounting of neutral losses |
PeptideAssumption | This object will models the assumption made by an advocate. |
SearchParameters | This class groups the parameters used for identification. |
SearchParametersInputBean | This class contains the parses parameters from a command line and stores them in a SearchParameters object. |
SequenceFactory | Factory retrieving the information of the loaded FASTA file. |
SpectrumAnnotator | The spectrum annotator annotates peaks in a spectrum. |
TagFactory | Convenience class for sequence tag generation. |
Enum Summary | |
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IdentificationMatch.MatchType | The type of match. |
SearchParameters.PrecursorAccuracyType | Possible mass accuracy types. |
SearchParametersCLIParams | Enum class specifying the SearchParameter command line option parameters for SearchCLI and DeNovoCLI. |
SearchParametersInputBean.ToolType | The tool type. |
This package contains experiment classes related to identifications.
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