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| PeptideEvidence & | operator= (const PeptideEvidence &source) |
| | assignment operator More...
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| bool | operator== (const PeptideEvidence &rhs) const |
| | Equality operator. More...
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| bool | operator!= (const PeptideEvidence &rhs) const |
| | Inequality operator. More...
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| | PeptideEvidence () |
| | default constructor More...
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| | PeptideEvidence (DoubleReal score, UInt rank, Int charge, const AASequence &sequence) |
| | values constructor More...
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| | PeptideEvidence (const PeptideEvidence &source) |
| | copy constructor More...
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| virtual | ~PeptideEvidence () |
| | destructor More...
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| const String & | getDBSequenceRef () const |
| | returns the corresponding protein db sequence ref More...
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| void | setDBSequenceRef (const String &rhs) |
| | sets the corresponding protein db sequence ref More...
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| const String & | getTranslationTableRef () const |
| | returns the translation table reference More...
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| void | setTranslationTableRef (const String &rhs) |
| | sets the translation table reference More...
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| void | setStart (Int start) |
| | start position in the sequence (xsd:int) More...
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| Int | getStart () const |
| | returns the start position in the sequence (xsd:int) More...
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| void | setEnd (Int end) |
| | sets the end position in the sequence More...
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| Int | getEnd () const |
| | returns the end position in the sequence More...
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| void | setPre (char rhs) |
| | sets the amino acid before the sequence, "-" if N-terminal, "?" if not applicable (e.g. de novo) More...
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| char | getPre () const |
| | returns the amino acid before the sequence More...
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| void | setPost (char rhs) |
| | sets the amino acid after the sequence, "-" if C-terminal, "?" if not applicable (e.g. de novo) More...
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| char | getPost () const |
| | returns the amino acid after the sequence More...
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| void | setId (const String &id) |
| | unique id of the file, set of files or repository More...
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| const String & | getId () const |
| | returns the unqiue id of the instance More...
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| void | setName (const String &name) |
| | sets the potentially ambigous but human readable name More...
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| const String & | getName () const |
| | returns the human readable name More...
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| void | setMissedCleavages (Int rhs) |
| | sets the number of missed cleavages More...
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| Int | getMissedCleavages () const |
| | returns the number of missed cleavages More...
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| void | setIsDecoy (bool is_decoy) |
| | sets whether the hit is a decoy hit More...
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| bool | getIsDecoy () const |
| | returns the whether the hit is decoy More...
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| void | setFrame (Int frame) |
| | Frame of the DB, e.g. from nucleic acids. More...
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| Int | getFrame () const |
| | returns the frame of the peptide evidence More...
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| | MetaInfoInterface () |
| | constructor More...
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| | MetaInfoInterface (const MetaInfoInterface &rhs) |
| | copy constructor More...
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| | ~MetaInfoInterface () |
| | destructor More...
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| MetaInfoInterface & | operator= (const MetaInfoInterface &rhs) |
| | assignment operator More...
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| bool | operator== (const MetaInfoInterface &rhs) const |
| | Equality operator. More...
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| bool | operator!= (const MetaInfoInterface &rhs) const |
| | Equality operator. More...
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| const DataValue & | getMetaValue (const String &name) const |
| | returns the value corresponding to a string More...
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| const DataValue & | getMetaValue (UInt index) const |
| | returns the value corresponding to an index More...
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| bool | metaValueExists (const String &name) const |
| | returns if this MetaInfo is set More...
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| bool | metaValueExists (UInt index) const |
| | returns if this MetaInfo is set More...
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| void | setMetaValue (const String &name, const DataValue &value) |
| | sets the DataValue corresponding to a name More...
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| void | setMetaValue (UInt index, const DataValue &value) |
| | sets the DataValue corresponding to an index More...
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| void | removeMetaValue (const String &name) |
| | Removes the DataValue corresponding to name if it exists. More...
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| void | removeMetaValue (UInt index) |
| | Removes the DataValue corresponding to index if it exists. More...
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| void | getKeys (std::vector< String > &keys) const |
| | fills the given vector with a list of all keys for which a value is set More...
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| void | getKeys (std::vector< UInt > &keys) const |
| | fills the given vector with a list of all keys for which a value is set More...
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| bool | isMetaEmpty () const |
| | returns if the MetaInfo is empty More...
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| void | clearMetaInfo () |
| | removes all meta values More...
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Representation of a MzIdentML PeptideEvidence.
It contains information about the protein the peptide comes from and additional information were it is located in the protein.
- Todo:
- implement CVParam