MSQuantifications#

class pyopenms.MSQuantifications#

Bases: object

Cython implementation of _MSQuantifications

Documentation is available at http://www.openms.de/current_doxygen/html/classOpenMS_1_1MSQuantifications.html: – Inherits from [‘ExperimentalSettings’]

__init__()#

Cython signature: void MSQuantifications()
Cython signature: void MSQuantifications(MSQuantifications &)
Cython signature: void MSQuantifications(FeatureMap fm, ExperimentalSettings & es, libcpp_vector[DataProcessing] & dps)

Methods

`__init__`	Cython signature: void MSQuantifications()
`addConsensusMap`	Cython signature: void addConsensusMap(ConsensusMap m)
`assignUIDs`	Cython signature: void assignUIDs()
`clearMetaInfo`	Cython signature: void clearMetaInfo() Removes all meta values
`getAnalysisSummary`	Cython signature: AnalysisSummary getAnalysisSummary()
`getAssays`	Cython signature: libcpp_vector[Assay] getAssays()
`getComment`	Cython signature: String getComment() Returns the free-text comment
`getConsensusMaps`	Cython signature: libcpp_vector[ConsensusMap] getConsensusMaps()
`getContacts`	Cython signature: libcpp_vector[ContactPerson] getContacts() Returns a reference to the list of contact persons
`getDataProcessingList`	Cython signature: libcpp_vector[DataProcessing] getDataProcessingList()
`getDateTime`	Cython signature: DateTime getDateTime() Returns the date the experiment was performed
`getFeatureMaps`	Cython signature: libcpp_vector[FeatureMap] getFeatureMaps()
`getFractionIdentifier`	Cython signature: String getFractionIdentifier() Returns fraction identifier
`getHPLC`	Cython signature: HPLC getHPLC() Returns a reference to the description of the HPLC run
`getIdentifier`	Cython signature: String getIdentifier() Retrieve document identifier (e.g.
`getInstrument`	Cython signature: Instrument getInstrument() Returns a reference to the MS instrument description
`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
`getLoadedFilePath`	Cython signature: String getLoadedFilePath() Returns the file_name which is the absolute path to the file loaded
`getLoadedFileType`	Cython signature: int getLoadedFileType() Returns the file_type (e.g.
`getMetaValue`	Cython signature: DataValue getMetaValue(String) Returns the value corresponding to a string, or
`getProteinIdentifications`	Cython signature: libcpp_vector[ProteinIdentification] getProteinIdentifications() Returns a reference to the protein ProteinIdentification vector
`getSample`	Cython signature: Sample getSample() Returns a reference to the sample description
`getSourceFiles`	Cython signature: libcpp_vector[SourceFile] getSourceFiles() Returns a reference to the source data file
`isMetaEmpty`	Cython signature: bool isMetaEmpty() Returns if the MetaInfo is empty
`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
`registerExperiment`
`removeMetaValue`	Cython signature: void removeMetaValue(String) Removes the DataValue corresponding to name if it exists
`setAnalysisSummaryQuantType`	Cython signature: void setAnalysisSummaryQuantType(QUANT_TYPES r)
`setComment`	Cython signature: void setComment(String comment) Sets the free-text comment
`setConsensusMaps`	Cython signature: void setConsensusMaps(libcpp_vector[ConsensusMap])
`setContacts`	Cython signature: void setContacts(libcpp_vector[ContactPerson] contacts) Sets the list of contact persons
`setDataProcessingList`	Cython signature: void setDataProcessingList(libcpp_vector[DataProcessing] dpl)
`setDateTime`	Cython signature: void setDateTime(DateTime date_time) Sets the date the experiment was performed
`setFractionIdentifier`	Cython signature: void setFractionIdentifier(String fraction_identifier) Sets the fraction identifier
`setHPLC`	Cython signature: void setHPLC(HPLC hplc) Sets the description of the HPLC run
`setIdentifier`	Cython signature: void setIdentifier(String id) Sets document identifier (e.g.
`setInstrument`	Cython signature: void setInstrument(Instrument instrument) Sets the MS instrument description
`setLoadedFilePath`	Cython signature: void setLoadedFilePath(String file_name) Sets the file_name according to absolute path of the file loaded, preferably done whilst loading
`setLoadedFileType`	Cython signature: void setLoadedFileType(String file_name) Sets the file_type according to the type of the file loaded from, preferably done whilst loading
`setMetaValue`	Cython signature: void setMetaValue(String, DataValue) Sets the DataValue corresponding to a name
`setProteinIdentifications`	Cython signature: void setProteinIdentifications(libcpp_vector[ProteinIdentification] protein_identifications) Sets the protein ProteinIdentification vector
`setSample`	Cython signature: void setSample(Sample sample) Sets the sample description
`setSourceFiles`	Cython signature: void setSourceFiles(libcpp_vector[SourceFile] source_files) Sets the source data file

QUANT_TYPES#: alias of pyopenms.pyopenms_3.__QUANT_TYPES

addConsensusMap()#: Cython signature: void addConsensusMap(ConsensusMap m)

assignUIDs()#: Cython signature: void assignUIDs()

clearMetaInfo()#: Cython signature: void clearMetaInfo() Removes all meta values

getAnalysisSummary()#: Cython signature: AnalysisSummary getAnalysisSummary()

getAssays()#: Cython signature: libcpp_vector[Assay] getAssays()

getComment()#: Cython signature: String getComment() Returns the free-text comment

getConsensusMaps()#: Cython signature: libcpp_vector[ConsensusMap] getConsensusMaps()

getContacts()#: Cython signature: libcpp_vector[ContactPerson] getContacts() Returns a reference to the list of contact persons

getDataProcessingList()#: Cython signature: libcpp_vector[DataProcessing] getDataProcessingList()

getDateTime()#: Cython signature: DateTime getDateTime() Returns the date the experiment was performed

getFeatureMaps()#: Cython signature: libcpp_vector[FeatureMap] getFeatureMaps()

getFractionIdentifier()#: Cython signature: String getFractionIdentifier() Returns fraction identifier

getHPLC()#: Cython signature: HPLC getHPLC() Returns a reference to the description of the HPLC run

getIdentifier()#: Cython signature: String getIdentifier() Retrieve document identifier (e.g. an LSID)

getInstrument()#: Cython signature: Instrument getInstrument() Returns a reference to the MS instrument description

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

getLoadedFilePath()#: Cython signature: String getLoadedFilePath() Returns the file_name which is the absolute path to the file loaded

getLoadedFileType()#: Cython signature: int getLoadedFileType() Returns the file_type (e.g. featureXML, consensusXML, mzData, mzXML, mzML, …) of the file loaded

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

getProteinIdentifications()#: Cython signature: libcpp_vector[ProteinIdentification] getProteinIdentifications() Returns a reference to the protein ProteinIdentification vector

getSample()#: Cython signature: Sample getSample() Returns a reference to the sample description

getSourceFiles()#: Cython signature: libcpp_vector[SourceFile] getSourceFiles() Returns a reference to the source data file

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

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

registerExperiment()#

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

setAnalysisSummaryQuantType()#: Cython signature: void setAnalysisSummaryQuantType(QUANT_TYPES r)

setComment()#: Cython signature: void setComment(String comment) Sets the free-text comment

setConsensusMaps()#: Cython signature: void setConsensusMaps(libcpp_vector[ConsensusMap])

setContacts()#: Cython signature: void setContacts(libcpp_vector[ContactPerson] contacts) Sets the list of contact persons

setDataProcessingList()#: Cython signature: void setDataProcessingList(libcpp_vector[DataProcessing] dpl)

setDateTime()#: Cython signature: void setDateTime(DateTime date_time) Sets the date the experiment was performed

setFractionIdentifier()#: Cython signature: void setFractionIdentifier(String fraction_identifier) Sets the fraction identifier

setHPLC()#: Cython signature: void setHPLC(HPLC hplc) Sets the description of the HPLC run

setIdentifier()#: Cython signature: void setIdentifier(String id) Sets document identifier (e.g. an LSID)

setInstrument()#: Cython signature: void setInstrument(Instrument instrument) Sets the MS instrument description

setLoadedFilePath()#: Cython signature: void setLoadedFilePath(String file_name) Sets the file_name according to absolute path of the file loaded, preferably done whilst loading

setLoadedFileType()#: Cython signature: void setLoadedFileType(String file_name) Sets the file_type according to the type of the file loaded from, preferably done whilst loading

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

setProteinIdentifications()#: Cython signature: void setProteinIdentifications(libcpp_vector[ProteinIdentification] protein_identifications) Sets the protein ProteinIdentification vector

setSample()#: Cython signature: void setSample(Sample sample) Sets the sample description

setSourceFiles()#: Cython signature: void setSourceFiles(libcpp_vector[SourceFile] source_files) Sets the source data file