MasstraceCorrelator

class pyopenms.MasstraceCorrelator

Bases: object

Cython implementation of _MasstraceCorrelator

Documentation is available at http://www.openms.de/current_doxygen/html/classOpenMS_1_1MasstraceCorrelator.html: – Inherits from [‘DefaultParamHandler’, ‘ProgressLogger’]

__init__()

Cython signature: void MasstraceCorrelator()
Cython signature: void MasstraceCorrelator(MasstraceCorrelator &)

Methods

`__init__`	Cython signature: void MasstraceCorrelator()
`createPseudoSpectra`	Cython signature: void createPseudoSpectra(const ConsensusMap & map_, MSExperiment & pseudo_spectra, size_t min_peak_nr, double min_correlation, int max_lag, double max_rt_apex_difference)
`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
`startProgress`	Cython signature: void startProgress(ptrdiff_t begin, ptrdiff_t end, String label)

createPseudoSpectra()

Cython signature: void createPseudoSpectra(const ConsensusMap & map_, MSExperiment & pseudo_spectra, size_t min_peak_nr, double min_correlation, int max_lag, double max_rt_apex_difference)

This function will take a set of masstraces (consensus map) as input and produce a vector of pseudo spectra as output (pseudo_spectra result vector). —– It basically makes an all-vs-all comparison of all masstraces against each other and scores them on how similar they are in their mass traces. —– This assumes that the consensus feature is only from one (SWATH) map This assumes that the consensus map is sorted by intensity

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

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