MRMMapping

class pyopenms.MRMMapping

Bases: object

Cython implementation of _MRMMapping

Documentation is available at http://www.openms.de/current_doxygen/html/classOpenMS_1_1MRMMapping.html: – Inherits from [‘DefaultParamHandler’]

__init__(): Cython signature: void MRMMapping()

Methods

`__init__`	Cython signature: void MRMMapping()
`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()
`mapExperiment`	Cython signature: void mapExperiment(MSExperiment input_chromatograms, TargetedExperiment targeted_exp, MSExperiment & output)
`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()

mapExperiment()

Cython signature: void mapExperiment(MSExperiment input_chromatograms, TargetedExperiment targeted_exp, MSExperiment & output)

The output chromatograms are an annotated copy of the input chromatograms with native id, precursor information and peptide sequence (if available) annotated in the chromatogram files —– The algorithm tries to match a given set of chromatograms and targeted assays. It iterates through all the chromatograms retrieves one or more matching targeted assay for the chromatogram. By default, the algorithm assumes that a 1:1 mapping exists. If a chromatogram cannot be mapped (does not have a corresponding assay) the algorithm issues a warning, the user can specify that the program should abort in such a case (see error_on_unmapped) —– :note If multiple mapping is enabled (see map_multiple_assays parameter) then each mapped assay will get its own chromatogram that contains the same raw data but different meta-annotation. This can be useful if the same transition is used to monitor multiple analytes but may also indicate a problem with too wide mapping tolerances

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

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