ReactionMonitoringTransition

class pyopenms.ReactionMonitoringTransition

Bases: object

Cython implementation of _ReactionMonitoringTransition

Documentation is available at http://www.openms.de/current_doxygen/html/classOpenMS_1_1ReactionMonitoringTransition.html

– Inherits from [‘CVTermList’]

__init__()

• Cython signature: void ReactionMonitoringTransition()

• Cython signature: void ReactionMonitoringTransition(ReactionMonitoringTransition &)

Methods

__init__	Cython signature: void ReactionMonitoringTransition()
addCVTerm	Cython signature: void addCVTerm(CVTerm & term) Adds a CV term
addIntermediateProduct	Cython signature: void addIntermediateProduct(TraMLProduct product)
addPrecursorCVTerm	Cython signature: void addPrecursorCVTerm(CVTerm & cv_term) Adds precursor CV Term
addPredictionTerm	Cython signature: void addPredictionTerm(CVTerm & prediction) Adds prediction term
addProductCVTerm	Cython signature: void addProductCVTerm(CVTerm & cv_term)
clearMetaInfo	Cython signature: void clearMetaInfo() Removes all meta values
consumeCVTerms	Cython signature: void consumeCVTerms(libcpp_map[String,libcpp_vector[CVTerm]] cv_term_map) Merges the given map into the member map, no duplicate checking
empty	Cython signature: bool empty()
getCVTerms	Cython signature: libcpp_map[String,libcpp_vector[CVTerm]] getCVTerms() Returns the accession string of the term
getCompoundRef	Cython signature: String getCompoundRef()
getDecoyTransitionType	Cython signature: DecoyTransitionType getDecoyTransitionType() Returns the type of transition (target or decoy)
getIntermediateProducts	Cython signature: libcpp_vector[TraMLProduct] getIntermediateProducts()
getKeys	Cython signature: void getKeys(libcpp_vector[String] & keys) Fills the given vector with a list of all keys for which a value is set
getLibraryIntensity	Cython signature: double getLibraryIntensity() Returns the library intensity (ion count or normalized ion count from a spectral library)
getMetaValue	Cython signature: DataValue getMetaValue(String) Returns the value corresponding to a string, or
getName	Cython signature: String getName()
getNativeID	Cython signature: String getNativeID()
getPeptideRef	Cython signature: String getPeptideRef()
getPrecursorCVTermList	Cython signature: CVTermList getPrecursorCVTermList() Obtains the list of CV Terms for the precursor
getPrecursorMZ	Cython signature: double getPrecursorMZ() Returns the precursor mz (Q1 value)
getPrediction	Cython signature: Prediction getPrediction() Obtains the Prediction object
getProduct	Cython signature: TraMLProduct getProduct()
getProductChargeState	Cython signature: int getProductChargeState() Returns the charge state of the product
getProductMZ	Cython signature: double getProductMZ()
getRetentionTime	Cython signature: RetentionTime getRetentionTime()
hasCVTerm	Cython signature: bool hasCVTerm(String accession)
hasPrecursorCVTerms	Cython signature: bool hasPrecursorCVTerms() Returns true if precursor CV Terms exist (means it is safe to call getPrecursorCVTermList)
hasPrediction	Cython signature: bool hasPrediction() Returns true if a Prediction object exists (means it is safe to call getPrediction)
isDetectingTransition	Cython signature: bool isDetectingTransition()
isIdentifyingTransition	Cython signature: bool isIdentifyingTransition()
isMetaEmpty	Cython signature: bool isMetaEmpty() Returns if the MetaInfo is empty
isProductChargeStateSet	Cython signature: bool isProductChargeStateSet() Returns true if charge state of product is already set
isQuantifyingTransition	Cython signature: bool isQuantifyingTransition()
metaRegistry	Cython signature: MetaInfoRegistry metaRegistry() Returns a reference to the MetaInfoRegistry
metaValueExists	Cython signature: bool metaValueExists(String) Returns whether an entry with the given name exists
removeMetaValue	Cython signature: void removeMetaValue(String) Removes the DataValue corresponding to name if it exists
replaceCVTerm	Cython signature: void replaceCVTerm(CVTerm & term) Replaces the specified CV term
replaceCVTerms	Cython signature: void replaceCVTerms(libcpp_vector[CVTerm] cv_terms, String accession)
setCVTerms	Cython signature: void setCVTerms(libcpp_vector[CVTerm] & terms) Sets the CV terms
setCompoundRef	Cython signature: void setCompoundRef(const String & compound_ref)
setDecoyTransitionType	Cython signature: void setDecoyTransitionType(DecoyTransitionType & d) Sets the type of transition (target or decoy)
setDetectingTransition	Cython signature: void setDetectingTransition(bool val)
setIdentifyingTransition	Cython signature: void setIdentifyingTransition(bool val)
setIntermediateProducts	Cython signature: void setIntermediateProducts(libcpp_vector[TraMLProduct] & products)
setLibraryIntensity	Cython signature: void setLibraryIntensity(double intensity) Sets the library intensity (ion count or normalized ion count from a spectral library)
setMetaValue	Cython signature: void setMetaValue(String, DataValue) Sets the DataValue corresponding to a name
setName	Cython signature: void setName(String name)
setNativeID	Cython signature: void setNativeID(String name)
setPeptideRef	Cython signature: void setPeptideRef(String peptide_ref)
setPrecursorCVTermList	Cython signature: void setPrecursorCVTermList(CVTermList & list_) Sets a list of precursor CV Terms
setPrecursorMZ	Cython signature: void setPrecursorMZ(double) Sets the precursor mz (Q1 value)
setPrediction	Cython signature: void setPrediction(Prediction & prediction) Sets prediction
setProduct	Cython signature: void setProduct(TraMLProduct product)
setProductMZ	Cython signature: void setProductMZ(double)
setQuantifyingTransition	Cython signature: void setQuantifyingTransition(bool val)
setRetentionTime	Cython signature: void setRetentionTime(RetentionTime rt)

addCVTerm()

Cython signature: void addCVTerm(CVTerm & term) Adds a CV term

addIntermediateProduct()

Cython signature: void addIntermediateProduct(TraMLProduct product)

addPrecursorCVTerm()

Cython signature: void addPrecursorCVTerm(CVTerm & cv_term) Adds precursor CV Term

addPredictionTerm()

Cython signature: void addPredictionTerm(CVTerm & prediction) Adds prediction term

addProductCVTerm()

Cython signature: void addProductCVTerm(CVTerm & cv_term)

clearMetaInfo()

Cython signature: void clearMetaInfo() Removes all meta values

consumeCVTerms()

Cython signature: void consumeCVTerms(libcpp_map[String,libcpp_vector[CVTerm]] cv_term_map) Merges the given map into the member map, no duplicate checking

empty()

Cython signature: bool empty()

getCVTerms()

Cython signature: libcpp_map[String,libcpp_vector[CVTerm]] getCVTerms() Returns the accession string of the term

getCompoundRef()

Cython signature: String getCompoundRef()

getDecoyTransitionType()

Cython signature: DecoyTransitionType getDecoyTransitionType() Returns the type of transition (target or decoy)

getIntermediateProducts()

Cython signature: libcpp_vector[TraMLProduct] getIntermediateProducts()

getKeys()

Cython signature: void getKeys(libcpp_vector[String] & keys) Fills the given vector with a list of all keys for which a value is set

getLibraryIntensity()

Cython signature: double getLibraryIntensity() Returns the library intensity (ion count or normalized ion count from a spectral library)

getMetaValue()

Cython signature: DataValue getMetaValue(String) Returns the value corresponding to a string, or

getName()

Cython signature: String getName()

getNativeID()

Cython signature: String getNativeID()

getPeptideRef()

Cython signature: String getPeptideRef()

getPrecursorCVTermList()

Cython signature: CVTermList getPrecursorCVTermList() Obtains the list of CV Terms for the precursor

getPrecursorMZ()

Cython signature: double getPrecursorMZ() Returns the precursor mz (Q1 value)

getPrediction()

Cython signature: Prediction getPrediction() Obtains the Prediction object

getProduct()

Cython signature: TraMLProduct getProduct()

getProductChargeState()

Cython signature: int getProductChargeState() Returns the charge state of the product

getProductMZ()

Cython signature: double getProductMZ()

getRetentionTime()

Cython signature: RetentionTime getRetentionTime()

hasCVTerm()

Cython signature: bool hasCVTerm(String accession)

hasPrecursorCVTerms()

Cython signature: bool hasPrecursorCVTerms() Returns true if precursor CV Terms exist (means it is safe to call getPrecursorCVTermList)

hasPrediction()

Cython signature: bool hasPrediction() Returns true if a Prediction object exists (means it is safe to call getPrediction)

isDetectingTransition()

Cython signature: bool isDetectingTransition()

isIdentifyingTransition()

Cython signature: bool isIdentifyingTransition()

isMetaEmpty()

Cython signature: bool isMetaEmpty() Returns if the MetaInfo is empty

isProductChargeStateSet()

Cython signature: bool isProductChargeStateSet() Returns true if charge state of product is already set

isQuantifyingTransition()

Cython signature: bool isQuantifyingTransition()

metaRegistry()

Cython signature: MetaInfoRegistry metaRegistry() Returns a reference to the MetaInfoRegistry

metaValueExists()

Cython signature: bool metaValueExists(String) Returns whether an entry with the given name exists

removeMetaValue()

Cython signature: void removeMetaValue(String) Removes the DataValue corresponding to name if it exists

replaceCVTerm()

Cython signature: void replaceCVTerm(CVTerm & term) Replaces the specified CV term

replaceCVTerms()

Cython signature: void replaceCVTerms(libcpp_vector[CVTerm] cv_terms, String accession)

setCVTerms()

Cython signature: void setCVTerms(libcpp_vector[CVTerm] & terms) Sets the CV terms

setCompoundRef()

Cython signature: void setCompoundRef(const String & compound_ref)

setDecoyTransitionType()

Cython signature: void setDecoyTransitionType(DecoyTransitionType & d) Sets the type of transition (target or decoy)

setDetectingTransition()

Cython signature: void setDetectingTransition(bool val)

setIdentifyingTransition()

Cython signature: void setIdentifyingTransition(bool val)

setIntermediateProducts()

Cython signature: void setIntermediateProducts(libcpp_vector[TraMLProduct] & products)

setLibraryIntensity()

Cython signature: void setLibraryIntensity(double intensity) Sets the library intensity (ion count or normalized ion count from a spectral library)

setMetaValue()

Cython signature: void setMetaValue(String, DataValue) Sets the DataValue corresponding to a name

setName()

Cython signature: void setName(String name)

setNativeID()

Cython signature: void setNativeID(String name)

setPeptideRef()

Cython signature: void setPeptideRef(String peptide_ref)

setPrecursorCVTermList()

Cython signature: void setPrecursorCVTermList(CVTermList & list_) Sets a list of precursor CV Terms

setPrecursorMZ()

Cython signature: void setPrecursorMZ(double) Sets the precursor mz (Q1 value)

setPrediction()

Cython signature: void setPrediction(Prediction & prediction) Sets prediction

setProduct()

Cython signature: void setProduct(TraMLProduct product)

setProductMZ()

Cython signature: void setProductMZ(double)

setQuantifyingTransition()

Cython signature: void setQuantifyingTransition(bool val)

setRetentionTime()

Cython signature: void setRetentionTime(RetentionTime rt)