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... | |
std::set< String > | extractProteinAccessions () const |
extracts the set of non-empty protein accessions from peptide evidences More... | |
Constructors and Destructor | |
PeptideHit () | |
default constructor More... | |
PeptideHit (double score, UInt rank, Int charge, const AASequence &sequence) | |
values constructor More... | |
PeptideHit (const PeptideHit &source) | |
copy constructor More... | |
virtual | ~PeptideHit () |
destructor More... | |
Accessors | |
const AASequence & | getSequence () const |
returns the peptide sequence without trailing or following spaces More... | |
void | setSequence (const AASequence &sequence) |
sets the peptide sequence More... | |
Int | getCharge () const |
returns the charge of the peptide More... | |
void | setCharge (Int charge) |
sets the charge of the peptide More... | |
const std::vector< PeptideEvidence > & | getPeptideEvidences () const |
returns information on peptides (potentially) identified by this PSM More... | |
void | setPeptideEvidences (const std::vector< PeptideEvidence > &peptide_evidences) |
set information on peptides (potentially) identified by this PSM More... | |
void | addPeptideEvidence (const PeptideEvidence &peptide_evidence) |
adds information on a peptide that is (potentially) identified by this PSM More... | |
double | getScore () const |
returns the PSM score More... | |
void | setScore (double score) |
sets the PSM score More... | |
UInt | getRank () const |
returns the PSM rank More... | |
void | setRank (UInt newrank) |
sets the PSM rank More... | |
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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 name if it exists. More... | |
void | removeMetaValue (UInt index) |
Removes the DataValue corresponding to index if 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 | |
AASequence | sequence_ |
double | 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... | |
std::vector< PeptideEvidence > | peptide_evidences_ |
information on the potential peptides observed through this PSM. More... | |
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MetaInfo * | meta_ |
pointer to the MetaInfo object. 0 by default More... | |
Additional Inherited Members | |
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static MetaInfoRegistry & | metaRegistry () |
returns a reference to the MetaInfoRegistry More... | |
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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 | ( | double | score, |
UInt | rank, | ||
Int | charge, | ||
const AASequence & | sequence | ||
) |
values constructor
PeptideHit | ( | const PeptideHit & | source | ) |
copy constructor
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virtual |
destructor
void addPeptideEvidence | ( | const PeptideEvidence & | peptide_evidence | ) |
adds information on a peptide that is (potentially) identified by this PSM
std::set<String> extractProteinAccessions | ( | ) | const |
extracts the set of non-empty protein accessions from peptide evidences
Int getCharge | ( | ) | const |
returns the charge of the peptide
const std::vector<PeptideEvidence>& getPeptideEvidences | ( | ) | const |
returns information on peptides (potentially) identified by this PSM
UInt getRank | ( | ) | const |
returns the PSM rank
double getScore | ( | ) | const |
returns the PSM score
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 setCharge | ( | Int | charge | ) |
sets the charge of the peptide
Referenced by SimpleSearchEngine::main_().
void setPeptideEvidences | ( | const std::vector< PeptideEvidence > & | peptide_evidences | ) |
set information on peptides (potentially) identified by this PSM
void setRank | ( | UInt | newrank | ) |
sets the PSM rank
void setScore | ( | double | score | ) |
sets the PSM score
Referenced by SimpleSearchEngine::main_().
void setSequence | ( | const AASequence & | sequence | ) |
sets the peptide sequence
Referenced by SimpleSearchEngine::main_().
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protected |
the charge of the peptide
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protected |
information on the potential peptides observed through this PSM.
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protected |
the position(rank) where the hit appeared in the hit list
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protected |
the score of the peptide hit
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protected |
OpenMS / TOPP release 2.0.0 | Documentation generated on Wed Mar 30 2016 12:49:29 using doxygen 1.8.11 |