SpectrumAlignmentScore

class pyopenms.SpectrumAlignmentScore

Bases: object

Cython implementation of _SpectrumAlignmentScore

Documentation is available at http://www.openms.de/current_doxygen/html/classOpenMS_1_1SpectrumAlignmentScore.html

– Inherits from [‘DefaultParamHandler’]

This class implements a simple scoring based on the alignment of spectra. This alignment is implemented in the SpectrumAlignment class and performs a dynamic programming alignment of the peaks, minimizing the distances between the aligned peaks and maximizing the number of peak pairs —– The scoring is done via the simple formula score = sum / (sqrt(sum1 * sum2)). sum is the product of the intensities of the aligned peaks, with the given exponent (default is 2) sum1 and sum2 are the sum of the intensities squared for each peak of both spectra respectively

__init__()

• Cython signature: void SpectrumAlignmentScore()

This class implements a simple scoring based on the alignment of spectra. This alignment is implemented in the SpectrumAlignment class and performs a dynamic programming alignment of the peaks, minimizing the distances between the aligned peaks and maximizing the number of peak pairs —– The scoring is done via the simple formula score = sum / (sqrt(sum1 * sum2)). sum is the product of the intensities of the aligned peaks, with the given exponent (default is 2) sum1 and sum2 are the sum of the intensities squared for each peak of both spectra respectively

• Cython signature: void SpectrumAlignmentScore(SpectrumAlignmentScore &)

Methods

__init__	Cython signature: void SpectrumAlignmentScore()
getDefaults	Cython signature: Param getDefaults() Returns the default parameters
getName	Cython signature: String getName() Returns the name
getParameters	Cython signature: Param getParameters() Returns the parameters
getSubsections	Cython signature: libcpp_vector[String] getSubsections()
setName	Cython signature: void setName(const String &) Sets the name
setParameters	Cython signature: void setParameters(Param & param) Sets the parameters

getDefaults()

Cython signature: Param getDefaults() Returns the default parameters

getName()

Cython signature: String getName() Returns the name

getParameters()

Cython signature: Param getParameters() Returns the parameters

getSubsections()

Cython signature: libcpp_vector[String] getSubsections()

setName()

Cython signature: void setName(const String &) Sets the name

setParameters()

Cython signature: void setParameters(Param & param) Sets the parameters