MapAlignmentAlgorithmIdentification

class pyopenms.MapAlignmentAlgorithmIdentification

Bases: object

Cython implementation of _MapAlignmentAlgorithmIdentification

Documentation is available at http://www.openms.de/current_doxygen/html/classOpenMS_1_1MapAlignmentAlgorithmIdentification.html

– Inherits from [‘DefaultParamHandler’, ‘ProgressLogger’]

__init__()

Cython signature: void MapAlignmentAlgorithmIdentification()

Methods

__init__	Cython signature: void MapAlignmentAlgorithmIdentification()
align	Cython signature: void align(libcpp_vector[MSExperiment] &, libcpp_vector[TransformationDescription] &, int)
align_4	Parameters: ids (list): list of lists of PeptideIdentification objects trafos (list): list of TransformationDescription objects ref_index (int)
endProgress	Cython signature: void endProgress() Ends the progress display
getDefaults	Cython signature: Param getDefaults() Returns the default parameters
getLogType	Cython signature: LogType getLogType() Returns the type of progress log being used
getName	Cython signature: String getName() Returns the name
getParameters	Cython signature: Param getParameters() Returns the parameters
getSubsections	Cython signature: libcpp_vector[String] getSubsections()
nextProgress	Cython signature: void nextProgress() Increment progress by 1 (according to range begin-end)
setLogType	Cython signature: void setLogType(LogType) Sets the progress log that should be used.
setName	Cython signature: void setName(const String &) Sets the name
setParameters	Cython signature: void setParameters(Param & param) Sets the parameters
setProgress	Cython signature: void setProgress(ptrdiff_t value) Sets the current progress
setReference	Cython signature: void setReference(MSExperiment &)
startProgress	Cython signature: void startProgress(ptrdiff_t begin, ptrdiff_t end, String label)

align()

• Cython signature: void align(libcpp_vector[MSExperiment] &, libcpp_vector[TransformationDescription] &, int)

• Cython signature: void align(libcpp_vector[FeatureMap] &, libcpp_vector[TransformationDescription] &, int)

• Cython signature: void align(libcpp_vector[ConsensusMap] &, libcpp_vector[TransformationDescription] &, int)

align_4()

Parameters: ids (list): list of lists of PeptideIdentification objects trafos (list): list of TransformationDescription objects ref_index (int)

endProgress()

Cython signature: void endProgress() Ends the progress display

getDefaults()

Cython signature: Param getDefaults() Returns the default parameters

getLogType()

Cython signature: LogType getLogType() Returns the type of progress log being used

getName()

Cython signature: String getName() Returns the name

getParameters()

Cython signature: Param getParameters() Returns the parameters

getSubsections()

Cython signature: libcpp_vector[String] getSubsections()

nextProgress()

Cython signature: void nextProgress() Increment progress by 1 (according to range begin-end)

setLogType()

Cython signature: void setLogType(LogType) Sets the progress log that should be used. The default type is NONE!

setName()

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

setParameters()

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

setProgress()

Cython signature: void setProgress(ptrdiff_t value) Sets the current progress

setReference()

• Cython signature: void setReference(MSExperiment &)

• Cython signature: void setReference(FeatureMap &)

• Cython signature: void setReference(ConsensusMap &)

• Cython signature: void setReference(libcpp_vector[PeptideIdentification] &)

startProgress()

Cython signature: void startProgress(ptrdiff_t begin, ptrdiff_t end, String label)