OpenMS  2.7.0
Public Member Functions | Protected Member Functions | List of all members
MaxLikeliFitter1D Class Reference

Abstract base class for all 1D-model fitters using maximum likelihood optimization. More...

#include <OpenMS/TRANSFORMATIONS/FEATUREFINDER/MaxLikeliFitter1D.h>

Inheritance diagram for MaxLikeliFitter1D:
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Collaboration diagram for MaxLikeliFitter1D:
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Public Member Functions

 MaxLikeliFitter1D ()
 default constructor More...
 
 MaxLikeliFitter1D (const MaxLikeliFitter1D &source)
 copy constructor More...
 
 ~MaxLikeliFitter1D () override
 destructor More...
 
virtual MaxLikeliFitter1Doperator= (const MaxLikeliFitter1D &source)
 assignment operator More...
 
- Public Member Functions inherited from Fitter1D
 Fitter1D ()
 Default constructor. More...
 
 Fitter1D (const Fitter1D &source)
 copy constructor More...
 
 ~Fitter1D () override
 destructor More...
 
virtual Fitter1Doperator= (const Fitter1D &source)
 assignment operator More...
 
virtual QualityType fit1d (const RawDataArrayType &, std::unique_ptr< InterpolationModel > &)
 return interpolation model More...
 
- Public Member Functions inherited from DefaultParamHandler
 DefaultParamHandler (const String &name)
 Constructor with name that is displayed in error messages. More...
 
 DefaultParamHandler (const DefaultParamHandler &rhs)
 Copy constructor. More...
 
virtual ~DefaultParamHandler ()
 Destructor. More...
 
virtual DefaultParamHandleroperator= (const DefaultParamHandler &rhs)
 Assignment operator. More...
 
virtual bool operator== (const DefaultParamHandler &rhs) const
 Equality operator. More...
 
void setParameters (const Param &param)
 Sets the parameters. More...
 
const ParamgetParameters () const
 Non-mutable access to the parameters. More...
 
const ParamgetDefaults () const
 Non-mutable access to the default parameters. More...
 
const StringgetName () const
 Non-mutable access to the name. More...
 
void setName (const String &name)
 Mutable access to the name. More...
 
const std::vector< String > & getSubsections () const
 Non-mutable access to the registered subsections. More...
 

Protected Member Functions

QualityType fitOffset_ (std::unique_ptr< InterpolationModel > &model, const RawDataArrayType &set, const CoordinateType stdev1, const CoordinateType stdev2, const CoordinateType offset_step) const
 fit an offset on the basis of the Pearson correlation coefficient More...
 
void updateMembers_ () override
 This method is used to update extra member variables at the end of the setParameters() method. More...
 
- Protected Member Functions inherited from DefaultParamHandler
void defaultsToParam_ ()
 Updates the parameters after the defaults have been set in the constructor. More...
 

Additional Inherited Members

- Public Types inherited from Fitter1D
typedef IsotopeCluster::IndexSet IndexSet
 IndexSet. More...
 
typedef IsotopeCluster::ChargedIndexSet ChargedIndexSet
 IndexSet with charge information. More...
 
typedef Feature::CoordinateType CoordinateType
 Single coordinate. More...
 
typedef Feature::QualityType QualityType
 Quality of a feature. More...
 
typedef Peak1D PeakType
 Peak type data point type. More...
 
typedef std::vector< PeakTypeRawDataArrayType
 Peak type data container type using for the temporary storage of the input data. More...
 
typedef RawDataArrayType::iterator PeakIterator
 Peak type data iterator. More...
 
- Public Types inherited from FeatureFinderDefs
enum  Flag { UNUSED , USED }
 Flags that indicate if a peak is already used in a feature. More...
 
typedef IsotopeCluster::IndexPair IndexPair
 Index to peak consisting of two UInts (scan index / peak index) More...
 
typedef IsotopeCluster::ChargedIndexSet ChargedIndexSet
 Index to peak consisting of two UInts (scan index / peak index) with charge information. More...
 
typedef IsotopeCluster::IndexSet IndexSet
 A set of peak indices. More...
 
- Static Public Member Functions inherited from Fitter1D
static void registerChildren ()
 register all derived classes here More...
 
- Static Public Member Functions inherited from DefaultParamHandler
static void writeParametersToMetaValues (const Param &write_this, MetaInfoInterface &write_here, const String &prefix="")
 Writes all parameters to meta values. More...
 
- Protected Attributes inherited from Fitter1D
CoordinateType tolerance_stdev_box_
 standard derivation in bounding box More...
 
Math::BasicStatistics statistics_
 basic statistics More...
 
CoordinateType interpolation_step_
 interpolation step size More...
 
- Protected Attributes inherited from DefaultParamHandler
Param param_
 Container for current parameters. More...
 
Param defaults_
 Container for default parameters. This member should be filled in the constructor of derived classes! More...
 
std::vector< Stringsubsections_
 Container for registered subsections. This member should be filled in the constructor of derived classes! More...
 
String error_name_
 Name that is displayed in error messages during the parameter checking. More...
 
bool check_defaults_
 If this member is set to false no checking if parameters in done;. More...
 
bool warn_empty_defaults_
 If this member is set to false no warning is emitted when defaults are empty;. More...
 

Detailed Description

Abstract base class for all 1D-model fitters using maximum likelihood optimization.

Constructor & Destructor Documentation

◆ MaxLikeliFitter1D() [1/2]

MaxLikeliFitter1D ( )
inline

default constructor

◆ MaxLikeliFitter1D() [2/2]

MaxLikeliFitter1D ( const MaxLikeliFitter1D source)
inline

copy constructor

◆ ~MaxLikeliFitter1D()

~MaxLikeliFitter1D ( )
inlineoverride

destructor

Member Function Documentation

◆ fitOffset_()

QualityType fitOffset_ ( std::unique_ptr< InterpolationModel > &  model,
const RawDataArrayType set,
const CoordinateType  stdev1,
const CoordinateType  stdev2,
const CoordinateType  offset_step 
) const
inlineprotected

fit an offset on the basis of the Pearson correlation coefficient

References OpenMS::Math::pearsonCorrelationCoefficient().

◆ operator=()

virtual MaxLikeliFitter1D& operator= ( const MaxLikeliFitter1D source)
inlinevirtual

assignment operator

References Fitter1D::operator=().

◆ updateMembers_()

void updateMembers_ ( )
inlineoverrideprotectedvirtual

This method is used to update extra member variables at the end of the setParameters() method.

Also call it at the end of the derived classes' copy constructor and assignment operator.

The default implementation is empty.

Reimplemented from Fitter1D.

References Fitter1D::updateMembers_().