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RawTandemMSSignalSimulation Class Reference

Simulates tandem MS signals for a given set of peptides. More...

#include <OpenMS/SIMULATION/RawTandemMSSignalSimulation.h>

Inheritance diagram for RawTandemMSSignalSimulation:
DefaultParamHandler

Public Member Functions

RawTandemMSSignalSimulationoperator= (const RawTandemMSSignalSimulation &source)
 
void generateRawTandemSignals (const SimTypes::FeatureMapSim &, SimTypes::MSSimExperiment &, SimTypes::MSSimExperiment &)
 
Constructors and Destructors
 RawTandemMSSignalSimulation ()
 Default constructor (hidden) More...
 
 RawTandemMSSignalSimulation (SimTypes::MutableSimRandomNumberGeneratorPtr rng)
 Constructor taking a random generator. More...
 
 RawTandemMSSignalSimulation (const RawTandemMSSignalSimulation &source)
 Copy constructor. More...
 
virtual ~RawTandemMSSignalSimulation ()
 Destructor. 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

void generateMSESpectra_ (const SimTypes::FeatureMapSim &features, const SimTypes::MSSimExperiment &experiment, SimTypes::MSSimExperiment &ms2)
 
void generatePrecursorSpectra_ (const SimTypes::FeatureMapSim &features, const SimTypes::MSSimExperiment &experiment, SimTypes::MSSimExperiment &ms2)
 
- Protected Member Functions inherited from DefaultParamHandler
virtual void updateMembers_ ()
 This method is used to update extra member variables at the end of the setParameters() method. More...
 
void defaultsToParam_ ()
 Updates the parameters after the defaults have been set in the constructor. More...
 

Protected Attributes

SimTypes::MutableSimRandomNumberGeneratorPtr rnd_gen_
 Random number generator. 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

Simulates tandem MS signals for a given set of peptides.

Simulates tandem MS signals for a given set of peptides, with charge annotation, given detectabilities, predicted retention times and charge values.

Constructor & Destructor Documentation

Default constructor (hidden)

Constructor taking a random generator.

Copy constructor.

virtual ~RawTandemMSSignalSimulation ( )
virtual

Destructor.

Member Function Documentation

void generateMSESpectra_ ( const SimTypes::FeatureMapSim features,
const SimTypes::MSSimExperiment experiment,
SimTypes::MSSimExperiment ms2 
)
protected
void generatePrecursorSpectra_ ( const SimTypes::FeatureMapSim features,
const SimTypes::MSSimExperiment experiment,
SimTypes::MSSimExperiment ms2 
)
protected
void generateRawTandemSignals ( const SimTypes::FeatureMapSim ,
SimTypes::MSSimExperiment ,
SimTypes::MSSimExperiment  
)

Member Data Documentation

Random number generator.


OpenMS / TOPP release 2.0.0 Documentation generated on Tue Nov 1 2016 16:34:46 using doxygen 1.8.11