Representation of a protein hit. More...
#include <OpenMS/METADATA/ProteinHit.h>
 
  
 | Classes | |
| class | ScoreLess | 
| Lesser predicate for scores of hits.  More... | |
| class | ScoreMore | 
| Greater predicate for scores of hits.  More... | |
| Public Member Functions | |
| ProteinHit & | operator= (const ProteinHit &source) | 
| assignment operator  More... | |
| ProteinHit & | operator= (const MetaInfoInterface &source) | 
| assignment for MetaInfo  More... | |
| bool | operator== (const ProteinHit &rhs) const | 
| Equality operator.  More... | |
| bool | operator!= (const ProteinHit &rhs) const | 
| Inequality operator.  More... | |
| Constructors and Destructor | |
| ProteinHit () | |
| default constructor  More... | |
| ProteinHit (DoubleReal score, UInt rank, String accession, String sequence) | |
| values constructor  More... | |
| ProteinHit (const ProteinHit &source) | |
| copy constructor  More... | |
| virtual | ~ProteinHit () | 
| destructor  More... | |
| Accessors | |
| Real | getScore () const | 
| returns the score of the protein hit  More... | |
| UInt | getRank () const | 
| returns the rank of the protein hit  More... | |
| const String & | getSequence () const | 
| returns the protein sequence  More... | |
| const String & | getAccession () const | 
| returns the accession of the protein  More... | |
| DoubleReal | getCoverage () const | 
| returns the coverage (in percent) of the protein hit based upon matched peptides  More... | |
| void | setScore (const DoubleReal score) | 
| sets the score of the protein hit  More... | |
| void | setRank (UInt newrank) | 
| sets the rank  More... | |
| void | setSequence (const String &sequence) | 
| sets the protein sequence  More... | |
| void | setAccession (const String &accession) | 
| sets the accession of the protein  More... | |
| void | setCoverage (const DoubleReal coverage) | 
| sets the coverage (in percent) of the protein hit based upon matched peptides  More... | |
|  Public Member Functions inherited from MetaInfoInterface | |
| MetaInfoInterface () | |
| constructor  More... | |
| MetaInfoInterface (const MetaInfoInterface &rhs) | |
| copy constructor  More... | |
| ~MetaInfoInterface () | |
| destructor  More... | |
| MetaInfoInterface & | operator= (const MetaInfoInterface &rhs) | 
| assignment operator  More... | |
| bool | operator== (const MetaInfoInterface &rhs) const | 
| Equality operator.  More... | |
| bool | operator!= (const MetaInfoInterface &rhs) const | 
| Equality operator.  More... | |
| const DataValue & | getMetaValue (const String &name) const | 
| returns the value corresponding to a string  More... | |
| const DataValue & | getMetaValue (UInt index) const | 
| returns the value corresponding to an index  More... | |
| bool | metaValueExists (const String &name) const | 
| returns if this MetaInfo is set  More... | |
| bool | metaValueExists (UInt index) const | 
| returns if this MetaInfo is set  More... | |
| void | setMetaValue (const String &name, const DataValue &value) | 
| sets the DataValue corresponding to a name  More... | |
| void | setMetaValue (UInt index, const DataValue &value) | 
| sets the DataValue corresponding to an index  More... | |
| void | removeMetaValue (const String &name) | 
| Removes the DataValue corresponding to nameif it exists.  More... | |
| void | removeMetaValue (UInt index) | 
| Removes the DataValue corresponding to indexif it exists.  More... | |
| void | getKeys (std::vector< String > &keys) const | 
| fills the given vector with a list of all keys for which a value is set  More... | |
| void | getKeys (std::vector< UInt > &keys) const | 
| fills the given vector with a list of all keys for which a value is set  More... | |
| bool | isMetaEmpty () const | 
| returns if the MetaInfo is empty  More... | |
| void | clearMetaInfo () | 
| removes all meta values  More... | |
| Protected Attributes | |
| Real | score_ | 
| the score of the protein hit  More... | |
| UInt | rank_ | 
| the position(rank) where the hit appeared in the hit list  More... | |
| String | accession_ | 
| the protein identifier  More... | |
| String | sequence_ | 
| the amino acid sequence of the protein hit  More... | |
| DoubleReal | coverage_ | 
| coverage of the protein based upon the matched peptide sequences  More... | |
|  Protected Attributes inherited from MetaInfoInterface | |
| MetaInfo * | meta_ | 
| pointer to the MetaInfo object. 0 by default  More... | |
| Additional Inherited Members | |
|  Static Public Member Functions inherited from MetaInfoInterface | |
| static MetaInfoRegistry & | metaRegistry () | 
| retuns a reference to the MetaInfoRegistry  More... | |
|  Protected Member Functions inherited from MetaInfoInterface | |
| void | createIfNotExists_ () | 
| creates the MetaInfo object if it does not exist  More... | |
Representation of a protein hit.
It contains the fields score, score_type, rank, accession, sequence and coverage.
| ProteinHit | ( | ) | 
default constructor
| ProteinHit | ( | DoubleReal | score, | 
| UInt | rank, | ||
| String | accession, | ||
| String | sequence | ||
| ) | 
values constructor
| ProteinHit | ( | const ProteinHit & | source | ) | 
copy constructor
| 
 | virtual | 
destructor
| const String& getAccession | ( | ) | const | 
returns the accession of the protein
| DoubleReal getCoverage | ( | ) | const | 
returns the coverage (in percent) of the protein hit based upon matched peptides
| UInt getRank | ( | ) | const | 
returns the rank of the protein hit
| Real getScore | ( | ) | const | 
returns the score of the protein hit
| const String& getSequence | ( | ) | const | 
returns the protein sequence
| bool operator!= | ( | const ProteinHit & | rhs | ) | const | 
Inequality operator.
| ProteinHit& operator= | ( | const ProteinHit & | source | ) | 
assignment operator
| ProteinHit& operator= | ( | const MetaInfoInterface & | source | ) | 
assignment for MetaInfo
| bool operator== | ( | const ProteinHit & | rhs | ) | const | 
Equality operator.
| void setAccession | ( | const String & | accession | ) | 
sets the accession of the protein
Referenced by DBAdapter::loadExperiment(), and MRMFeatureFinderScoring::pickExperiment().
| void setCoverage | ( | const DoubleReal | coverage | ) | 
sets the coverage (in percent) of the protein hit based upon matched peptides
| void setRank | ( | UInt | newrank | ) | 
sets the rank
Referenced by DBAdapter::loadExperiment().
| void setScore | ( | const DoubleReal | score | ) | 
sets the score of the protein hit
Referenced by DBAdapter::loadExperiment().
| void setSequence | ( | const String & | sequence | ) | 
sets the protein sequence
Referenced by DBAdapter::loadExperiment(), and MRMFeatureFinderScoring::pickExperiment().
| 
 | protected | 
the protein identifier
| 
 | protected | 
coverage of the protein based upon the matched peptide sequences
| 
 | protected | 
the position(rank) where the hit appeared in the hit list
| 
 | protected | 
the score of the protein hit
| 
 | protected | 
the amino acid sequence of the protein hit
| OpenMS / TOPP release 1.11.1 | Documentation generated on Thu Nov 14 2013 11:19:33 using doxygen 1.8.5 |