BernNorm scales the peaks by ranking them and then scaling them according to rank. More...
#include <OpenMS/FILTERING/TRANSFORMERS/BernNorm.h>
 
  
 | Public Member Functions | |
| BernNorm () | |
| default constructor  More... | |
| BernNorm (const BernNorm &source) | |
| copy constructor  More... | |
| virtual | ~BernNorm () | 
| destructor  More... | |
| BernNorm & | operator= (const BernNorm &source) | 
| assignment operator  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 DefaultParamHandler & | operator= (const DefaultParamHandler &rhs) | 
| Assignment operator.  More... | |
| virtual bool | operator== (const DefaultParamHandler &rhs) const | 
| Equality operator.  More... | |
| void | setParameters (const Param ¶m) | 
| Sets the parameters.  More... | |
| const Param & | getParameters () const | 
| Non-mutable access to the parameters.  More... | |
| const Param & | getDefaults () const | 
| Non-mutable access to the default parameters.  More... | |
| const String & | getName () 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... | |
| DoubleReal | c1_ | 
| DoubleReal | c2_ | 
| DoubleReal | th_ | 
| template<typename SpectrumType > | |
| void | filterSpectrum (SpectrumType &spectrum) | 
| void | filterPeakSpectrum (PeakSpectrum &spectrum) | 
| void | filterPeakMap (PeakMap &exp) | 
| Additional Inherited Members | |
|  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 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< String > | subsections_ | 
| 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... | |
BernNorm scales the peaks by ranking them and then scaling them according to rank.
For exact formula look in Bioinformatics, Aug 2004; 20: i49 - i54
| Name | Type | Default | Restrictions | Description | 
|---|---|---|---|---|
| C1 | float | 28 | C1 value of the normalization. | |
| C2 | float | 400 | C2 value of the normalization. | |
| threshold | float | 0.1 | Threshold of the Bern et al. normalization. | 
| BernNorm | ( | ) | 
default constructor
| 
 | virtual | 
destructor
| void filterPeakMap | ( | PeakMap & | exp | ) | 
| void filterPeakSpectrum | ( | PeakSpectrum & | spectrum | ) | 
| 
 | inline | 
| 
 | private | 
| 
 | private | 
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 | private | 
| OpenMS / TOPP release 1.11.1 | Documentation generated on Thu Nov 14 2013 11:19:30 using doxygen 1.8.5 |