PeakPickerCWT

class pyopenms.PeakPickerCWT

Bases: object

Cython implementation of _PeakPickerCWT

Original C++ documentation is available here

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

__init__()

Overload:

__init__(self) → None

Overload:

__init__(self, in_0: PeakPickerCWT) → None

Methods

__init__	Overload:
endProgress(self)	Ends the progress display
estimatePeakWidth(self, input)	Estimates average peak width that can then be used for peak picking
getDefaults(self)	Returns the default parameters
getLogType(self)	Returns the type of progress log being used
getName(self)	Returns the name
getParameters(self)	Returns the parameters
getSubsections(self)
nextProgress(self)	Increment progress by 1 (according to range begin-end)
pick(self, input, output)	Applies the peak picking algorithm to a single spectrum
pickExperiment(self, input, output)	Picks the peaks in an MSExperiment
setLogType(self, in_0)	Sets the progress log that should be used.
setName(self, in_0)	Sets the name
setParameters(self, param)	Sets the parameters
setProgress(self, value)	Sets the current progress
startProgress(self, begin, end, label)

endProgress(self) → None

Ends the progress display

estimatePeakWidth(self, input: MSExperiment) → float

Estimates average peak width that can then be used for peak picking

The spectra with the highest TICs are used to estimate an average peak width that can be used as the peak_width parameter for picking the complete data set. Typically, the number of peaks increases with decreasing peak width until a plateau is reached. The beginning of this plateau is our estimate for the peak width. This estimate is averaged over several spectra

getDefaults(self) → Param

Returns the default parameters

getLogType(self) → int

Returns the type of progress log being used

getName(self) → bytes | str | String

Returns the name

getParameters(self) → Param

Returns the parameters

getSubsections(self) → List[bytes]

nextProgress(self) → None

Increment progress by 1 (according to range begin-end)

pick(self, input: MSSpectrum, output: MSSpectrum) → None

Applies the peak picking algorithm to a single spectrum

Picks the peaks in the input spectrum and writes the resulting peaks to the output container

pickExperiment(self, input: MSExperiment, output: MSExperiment) → None

Picks the peaks in an MSExperiment

Picks the peaks successive in every scan in the spectrum range. The detected peaks are stored in the output MSExperiment

setLogType(self, in_0: int) → None

Sets the progress log that should be used. The default type is NONE!

setName(self, in_0: bytes | str | String) → None

Sets the name

setParameters(self, param: Param) → None

Sets the parameters

setProgress(self, value: int) → None

Sets the current progress

startProgress(self, begin: int, end: int, label: bytes | str | String) → None