Representation of a peptide hit. More...
#include <OpenMS/METADATA/PeptideHit.h>
 
  
 | Classes | |
| class | ScoreLess | 
| Lesser predicate for scores of hits.  More... | |
| class | ScoreMore | 
| Greater predicate for scores of hits.  More... | |
| Public Member Functions | |
| PeptideHit & | operator= (const PeptideHit &source) | 
| assignment operator  More... | |
| bool | operator== (const PeptideHit &rhs) const | 
| Equality operator.  More... | |
| bool | operator!= (const PeptideHit &rhs) const | 
| Inequality operator.  More... | |
| Constructors and Destructor | |
| PeptideHit () | |
| default constructor  More... | |
| PeptideHit (DoubleReal score, UInt rank, Int charge, const AASequence &sequence) | |
| values constructor  More... | |
| PeptideHit (const PeptideHit &source) | |
| copy constructor  More... | |
| virtual | ~PeptideHit () | 
| destructor  More... | |
| Accessors | |
| DoubleReal | getScore () const | 
| returns the score of the peptide hit  More... | |
| UInt | getRank () const | 
| returns the rank of the peptide hit  More... | |
| const AASequence & | getSequence () const | 
| returns the peptide sequence without trailing or following spaces  More... | |
| Int | getCharge () const | 
| returns the carge of the peptide  More... | |
| const std::vector< String > & | getProteinAccessions () const | 
| returns the corresponding protein accessions  More... | |
| void | setProteinAccessions (const std::vector< String > &accessions) | 
| sets the corresponding protein accessions  More... | |
| void | setScore (DoubleReal score) | 
| sets the score of the peptide hit  More... | |
| void | setRank (UInt newrank) | 
| sets the rank  More... | |
| void | setSequence (const AASequence &sequence) | 
| sets the peptide sequence  More... | |
| void | setCharge (Int charge) | 
| sets the charge of the peptide  More... | |
| void | addProteinAccession (const String &accession) | 
| adds an accession of a protein which contains this peptide hit  More... | |
| void | setAABefore (char acid) | 
| sets the amino acid before the sequence  More... | |
| char | getAABefore () const | 
| returns the amino acid before the sequence  More... | |
| void | setAAAfter (char acid) | 
| sets the amino acid after the sequence  More... | |
| char | getAAAfter () const | 
| returns the amino acid after the sequence  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 | |
| DoubleReal | score_ | 
| the score of the peptide hit  More... | |
| UInt | rank_ | 
| the position(rank) where the hit appeared in the hit list  More... | |
| Int | charge_ | 
| the charge of the peptide  More... | |
| AASequence | sequence_ | 
| the amino acid sequence of the peptide hit  More... | |
| char | aa_before_ | 
| Amino acid before the sequence.  More... | |
| char | aa_after_ | 
| Amino acid after the sequence.  More... | |
| std::vector< String > | corresponding_protein_accessions_ | 
| the accessions of the corresponding proteins  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 peptide hit.
It contains the fields score, score_type, rank, and sequence.
| PeptideHit | ( | ) | 
default constructor
| PeptideHit | ( | DoubleReal | score, | 
| UInt | rank, | ||
| Int | charge, | ||
| const AASequence & | sequence | ||
| ) | 
values constructor
| PeptideHit | ( | const PeptideHit & | source | ) | 
copy constructor
| 
 | virtual | 
destructor
| void addProteinAccession | ( | const String & | accession | ) | 
adds an accession of a protein which contains this peptide hit
Referenced by MRMFeatureFinderScoring::scorePeakgroups_().
| char getAAAfter | ( | ) | const | 
returns the amino acid after the sequence
| char getAABefore | ( | ) | const | 
returns the amino acid before the sequence
| Int getCharge | ( | ) | const | 
returns the carge of the peptide
| const std::vector<String>& getProteinAccessions | ( | ) | const | 
returns the corresponding protein accessions
| UInt getRank | ( | ) | const | 
returns the rank of the peptide hit
| DoubleReal getScore | ( | ) | const | 
returns the score of the peptide hit
| const AASequence& getSequence | ( | ) | const | 
returns the peptide sequence without trailing or following spaces
| bool operator!= | ( | const PeptideHit & | rhs | ) | const | 
Inequality operator.
| PeptideHit& operator= | ( | const PeptideHit & | source | ) | 
assignment operator
| bool operator== | ( | const PeptideHit & | rhs | ) | const | 
Equality operator.
| void setAAAfter | ( | char | acid | ) | 
sets the amino acid after the sequence
Referenced by DBAdapter::loadSpectrum().
| void setAABefore | ( | char | acid | ) | 
sets the amino acid before the sequence
Referenced by DBAdapter::loadSpectrum().
| void setCharge | ( | Int | charge | ) | 
sets the charge of the peptide
Referenced by DBAdapter::loadSpectrum(), and MRMFeatureFinderScoring::scorePeakgroups_().
| void setProteinAccessions | ( | const std::vector< String > & | accessions | ) | 
sets the corresponding protein accessions
| void setRank | ( | UInt | newrank | ) | 
sets the rank
| void setScore | ( | DoubleReal | score | ) | 
sets the score of the peptide hit
Referenced by DBAdapter::loadSpectrum(), and MRMFeatureFinderScoring::scorePeakgroups_().
| void setSequence | ( | const AASequence & | sequence | ) | 
sets the peptide sequence
Referenced by DBAdapter::loadSpectrum(), and MRMFeatureFinderScoring::scorePeakgroups_().
| 
 | protected | 
Amino acid after the sequence.
| 
 | protected | 
Amino acid before the sequence.
| 
 | protected | 
the charge of the peptide
| 
 | protected | 
the accessions of the corresponding proteins
| 
 | protected | 
the position(rank) where the hit appeared in the hit list
| 
 | protected | 
the score of the peptide hit
| 
 | protected | 
the amino acid sequence of the peptide hit
| OpenMS / TOPP release 1.11.1 | Documentation generated on Thu Nov 14 2013 11:19:33 using doxygen 1.8.5 |