Peak1D Class Reference

A 1-dimensional raw data point or peak. More...

#include <OpenMS/KERNEL/Peak1D.h>

Inheritance diagram for Peak1D:

Classes
struct	IntensityLess
struct	MZLess
	Comparator by m/z position. More...
struct	PositionLess
	Comparator by position. As this class has dimension 1, this is basically an alias for MZLess. More...

Public Types
Type definitions
Dimension
enum	{ DIMENSION = 1 }
typedef float	IntensityType
	Intensity type. More...
typedef DPosition< 1 >	PositionType
	Position type. More...
typedef double	CoordinateType
	Coordinate type. More...

Public Member Functions
Peak1D &	operator= (const Peak1D &rhs)
	Assignment operator. More...
bool	operator== (const Peak1D &rhs) const
	Equality operator. More...
bool	operator!= (const Peak1D &rhs) const
	Equality operator. More...
Constructors and Destructor
Default constructor
	Peak1D ()
	Peak1D (PositionType a, IntensityType b)
	construct with position and intensity More...
	Peak1D (const Peak1D &p)
	Copy constructor. More...
	~Peak1D ()
	Destructor. More...
Accessors
IntensityType	getIntensity () const
void	setIntensity (IntensityType intensity)
	Mutable access to the data point intensity (height) More...
CoordinateType	getMZ () const
	Non-mutable access to m/z. More...
void	setMZ (CoordinateType mz)
	Mutable access to m/z. More...
CoordinateType	getPos () const
	Alias for getMZ() More...
void	setPos (CoordinateType pos)
	Alias for setMZ() More...
PositionType const &	getPosition () const
	Non-mutable access to the position. More...
PositionType &	getPosition ()
	Mutable access to the position. More...
void	setPosition (PositionType const &position)
	Mutable access to the position. More...

Protected Attributes
PositionType	position_
	The data point position. More...
IntensityType	intensity_
	The data point intensity. More...

Detailed Description

A 1-dimensional raw data point or peak.

This data structure is intended for continuous data or peak data. If you want to annotated single peaks with meta data, use RichPeak1D instead.

Member Typedef Documentation

CoordinateType

typedef double CoordinateType

Coordinate type.

IntensityType

typedef float IntensityType

Intensity type.

PositionType

typedef DPosition<1> PositionType

Position type.

Member Enumeration Documentation

anonymous enum

anonymous enum

Enumerator
DIMENSION

Constructor & Destructor Documentation

Peak1D() [1/3]

Peak1D ( )

inline

Peak1D() [2/3]

Peak1D ( PositionType  a, IntensityType  b  )

inline

construct with position and intensity

Peak1D() [3/3]

Peak1D ( const Peak1D &  p )

inline

Copy constructor.

~Peak1D()

~Peak1D ( )

inline

Destructor.

Note

The destructor is non-virtual although many classes are derived from Peak1D. This is intentional, since otherwise we would "waste" space for a vtable pointer in each instance. Normally you should not derive other classes from Peak1D (unless you know what you are doing, of course).

Member Function Documentation

getIntensity()

IntensityType getIntensity ( ) const

inline

Non-mutable access to the data point intensity (height)

Referenced by DTA2DFile::load(), Peak1D::IntensityLess::operator()(), MetaProSIPReporting::plotFilteredSpectra(), and RNPxlSearch::postScoreHits_().

getMZ()

CoordinateType getMZ ( ) const

inline

Non-mutable access to m/z.

Referenced by Deisotoper::deisotopeAndSingleChargeMSSpectrum(), SimpleSearchEngine::deisotopeAndSingleChargeMSSpectrum(), DTA2DFile::load(), Peak1D::MZLess::operator()(), MetaProSIPReporting::plotFilteredSpectra(), RNPxlSearch::postScoreHits_(), TOPPOpenPepXL::preprocessPairs_(), and DTAFile::store().

getPos()

CoordinateType getPos ( ) const

inline

Alias for getMZ()

getPosition() [1/2]

PositionType const& getPosition ( ) const

inline

Non-mutable access to the position.

Referenced by Peak1D::PositionLess::operator()().

getPosition() [2/2]

PositionType& getPosition ( )

inline

Mutable access to the position.

operator!=()

bool operator!= ( const Peak1D &  rhs ) const

inline

Equality operator.

References KDTree::operator==().

operator=()

Peak1D& operator= ( const Peak1D &  rhs )

inline

Assignment operator.

References Peak1D::intensity_, and Peak1D::position_.

operator==()

bool operator== ( const Peak1D &  rhs ) const

inline

Equality operator.

References Peak1D::intensity_, and Peak1D::position_.

setIntensity()

void setIntensity ( IntensityType  intensity )

inline

Mutable access to the data point intensity (height)

Referenced by SpectraMerger::averageCentroidSpectra_(), SpectraMerger::averageProfileSpectra_(), MetaProSIPDecomposition::calculateDecompositionWeightsIsotopicPatterns(), MascotGenericFile::getNextSpectrum_(), OnDiscMSExperiment::getSpectrum(), TOPPMetaProSIP::isotopicIntensitiesToSpectrum(), MS2File::load(), DTAFile::load(), MascotInfile::load(), XMassFile::load(), DTA2DFile::load(), PeakPickerSH::pick(), PeakPickerHiRes::pick(), PeakPickerIterative::pick(), and EmgScoring::prepareFit_().

setMZ()

void setMZ ( CoordinateType  mz )

inline

Mutable access to m/z.

Referenced by SpectraMerger::averageCentroidSpectra_(), SpectraMerger::averageProfileSpectra_(), MetaProSIPDecomposition::calculateDecompositionWeightsIsotopicPatterns(), Deisotoper::deisotopeAndSingleChargeMSSpectrum(), SimpleSearchEngine::deisotopeAndSingleChargeMSSpectrum(), IDEvaluationBase::getPoints(), OnDiscMSExperiment::getSpectrum(), TOPPMetaProSIP::isotopicIntensitiesToSpectrum(), DTAFile::load(), DTA2DFile::load(), TOPPRNPxl::main_(), PeakPickerSH::pick(), PeakPickerHiRes::pick(), PeakPickerIterative::pick(), EmgScoring::prepareFit_(), ChromatogramExtractor::prepareSpectra_(), TOPPOpenPepXL::preprocessPairs_(), ChromatogramExtractor::return_chromatogram(), and TOPPViewBase::showSpectrumGenerationDialog().

setPos()

void setPos ( CoordinateType  pos )

inline

Alias for setMZ()

setPosition()

void setPosition ( PositionType const &  position )

inline

Mutable access to the position.

Referenced by MascotGenericFile::getNextSpectrum_(), MS2File::load(), DTAFile::load(), MascotInfile::load(), and XMassFile::load().

Member Data Documentation

intensity_

IntensityType intensity_

protected

The data point intensity.

Referenced by Peak1D::operator=(), and Peak1D::operator==().

position_

PositionType position_

protected

The data point position.

Referenced by Peak1D::operator=(), and Peak1D::operator==().