MSExperiment Member List

This is the complete list of members for MSExperiment, including all inherited members.

addChromatogram(const MSChromatogram &chromatogram)	MSExperiment
addChromatogram(MSChromatogram &&chrom)	MSExperiment
addMetaValues(const MetaInfoInterface &from)	MetaInfoInterface
addSpectrum(const MSSpectrum &spectrum)	MSExperiment
addSpectrum(MSSpectrum &&spectrum)	MSExperiment
aggregate(const std::vector< std::pair< RangeMZ, RangeRT >> &mz_rt_ranges, unsigned int ms_level, MzReductionFunctionType func_mz_reduction) const	MSExperiment	inline
aggregate(const std::vector< std::pair< RangeMZ, RangeRT >> &mz_rt_ranges, unsigned int ms_level) const	MSExperiment	inline
aggregateFromMatrix(const Matrix< double > &ranges, unsigned int ms_level, const std::string &mz_agg) const	MSExperiment	inline
areaBegin(CoordinateType min_rt, CoordinateType max_rt, CoordinateType min_mz, CoordinateType max_mz, UInt ms_level=1)	MSExperiment
areaBegin(const RangeManagerType &range, UInt ms_level=1)	MSExperiment
areaBeginConst(CoordinateType min_rt, CoordinateType max_rt, CoordinateType min_mz, CoordinateType max_mz, UInt ms_level=1) const	MSExperiment
areaBeginConst(const RangeManagerType &range, UInt ms_level=1) const	MSExperiment
areaEnd()	MSExperiment
areaEndConst() const	MSExperiment
AreaIterator typedef	MSExperiment
assign(const RangeManager< RangeBasesOther... > &rhs)	RangeManager< RangeBases... >	inline
assignUnsafe(const RangeManager< RangeBasesOther... > &rhs)	RangeManager< RangeBases... >	inline
Base typedef	MSExperiment
begin() noexcept	MSExperiment	inline
begin() const noexcept	MSExperiment	inline
calculateTIC(float rt_bin_size=0, UInt ms_level=1) const	MSExperiment
cbegin() const noexcept	MSExperiment	inline
cend() const noexcept	MSExperiment	inline
ChromatogramPeakT typedef	MSExperiment
ChromatogramPeakType typedef	MSExperiment
chromatograms_	MSExperiment	protected
ChromatogramType typedef	MSExperiment
clampTo(const RangeManager< RangeBasesOther... > &rhs)	RangeManager< RangeBases... >	inline
clampToUnsafe(const RangeManager< RangeBasesOther... > &rhs)	RangeManager< RangeBases... >	inline
clear(bool clear_meta_data)	MSExperiment
RangeManagerContainer< RangeRT, RangeMZ, RangeIntensity, RangeMobility >::clear(const DIM_UNIT range)	RangeManager< RangeBases... >	inline
clearMetaDataArrays()	MSExperiment
clearMetaInfo()	MetaInfoInterface
clearRanges()	RangeManager< RangeBases... >	inline
comment_	ExperimentalSettings	protected
const_iterator typedef	MSExperiment
ConstAreaIterator typedef	MSExperiment
ConstIterator typedef	MSExperiment
contacts_	ExperimentalSettings	protected
containsAll(const RangeManager< RangeBasesOther... > &rhs) const	RangeManager< RangeBases... >	inline
containsScanOfLevel(size_t ms_level) const	MSExperiment
CoordinateType typedef	MSExperiment
createIfNotExists_()	MetaInfoInterface	inlineprotected
createSpec_(PeakType::CoordinateType rt)	MSExperiment	private
createSpec_(PeakType::CoordinateType rt, const StringList &metadata_names)	MSExperiment	private
datetime_	ExperimentalSettings	protected
DocumentIdentifier()	DocumentIdentifier
DocumentIdentifier(const DocumentIdentifier &)=default	DocumentIdentifier
DocumentIdentifier(DocumentIdentifier &&)=default	DocumentIdentifier
empty() const noexcept	MSExperiment	inline
end()	MSExperiment	inline
end() const noexcept	MSExperiment	inline
ExperimentalSettings()=default	ExperimentalSettings
ExperimentalSettings(const ExperimentalSettings &)=default	ExperimentalSettings
ExperimentalSettings(ExperimentalSettings &&)=default	ExperimentalSettings
extend(const RangeManager< RangeBasesOther... > &rhs)	RangeManager< RangeBases... >	inline
extendUnsafe(const RangeManager< RangeBasesOther... > &rhs)	RangeManager< RangeBases... >	inline
extractXICs(const std::vector< std::pair< RangeMZ, RangeRT >> &mz_rt_ranges, unsigned int ms_level, MzReductionFunctionType func_mz_reduction) const	MSExperiment	inline
extractXICs(const std::vector< std::pair< RangeMZ, RangeRT >> &mz_rt_ranges, unsigned int ms_level) const	MSExperiment	inline
extractXICsFromMatrix(const Matrix< double > &ranges, unsigned int ms_level, const std::string &mz_agg) const	MSExperiment	inline
file_path_	DocumentIdentifier	protected
file_type_	DocumentIdentifier	protected
for_each_base_(Visitor &&visitor)	RangeManager< RangeBases... >	inlineprotected
for_each_base_(Visitor &&visitor) const	RangeManager< RangeBases... >	inlineprotected
fraction_identifier_	ExperimentalSettings	protected
get2DData(Container &cont) const	MSExperiment	inline
get2DPeakData(CoordinateType min_rt, CoordinateType max_rt, CoordinateType min_mz, CoordinateType max_mz, Size ms_level, std::vector< float > &rt, std::vector< float > &mz, std::vector< float > &intensity) const	MSExperiment	inline
get2DPeakDataIM(CoordinateType min_rt, CoordinateType max_rt, CoordinateType min_mz, CoordinateType max_mz, Size ms_level, std::vector< float > &rt, std::vector< float > &mz, std::vector< float > &intensity, std::vector< float > &ion_mobility) const	MSExperiment	inline
get2DPeakDataIMPerSpectrum(CoordinateType min_rt, CoordinateType max_rt, CoordinateType min_mz, CoordinateType max_mz, Size ms_level, std::vector< float > &rt, std::vector< std::vector< float >> &mz, std::vector< std::vector< float >> &intensity, std::vector< std::vector< float >> &ion_mobility) const	MSExperiment	inline
get2DPeakDataPerSpectrum(CoordinateType min_rt, CoordinateType max_rt, CoordinateType min_mz, CoordinateType max_mz, Size ms_level, std::vector< float > &rt, std::vector< std::vector< float >> &mz, std::vector< std::vector< float >> &intensity) const	MSExperiment	inline
getChromatogram(Size id)	MSExperiment
getChromatograms() const	MSExperiment
getChromatograms()	MSExperiment
getClosestSpectrumInRT(const double RT) const	MSExperiment
getClosestSpectrumInRT(const double RT)	MSExperiment
getClosestSpectrumInRT(const double RT, UInt ms_level) const	MSExperiment
getClosestSpectrumInRT(const double RT, UInt ms_level)	MSExperiment
getComment() const	ExperimentalSettings
getContacts() const	ExperimentalSettings
getContacts()	ExperimentalSettings
getDateTime() const	ExperimentalSettings
getExperimentalSettings() const	MSExperiment
getExperimentalSettings()	MSExperiment
getFirstProductSpectrum(ConstIterator iterator) const	MSExperiment
getFirstProductSpectrum(int zero_based_index) const	MSExperiment
getFractionIdentifier() const	ExperimentalSettings
getHPLC() const	ExperimentalSettings
getHPLC()	ExperimentalSettings
getIdentifier() const	DocumentIdentifier
getInstrument() const	ExperimentalSettings
getInstrument()	ExperimentalSettings
getKeys(std::vector< String > &keys) const	MetaInfoInterface
getKeys(std::vector< UInt > &keys) const	MetaInfoInterface
getLoadedFilePath() const	DocumentIdentifier
getLoadedFileType() const	DocumentIdentifier
getMetaValue(const String &name) const	MetaInfoInterface
getMetaValue(const String &name, const DataValue &default_value) const	MetaInfoInterface
getMetaValue(UInt index) const	MetaInfoInterface
getMetaValue(UInt index, const DataValue &default_value) const	MetaInfoInterface
getMSLevels() const	MSExperiment
getNrChromatograms() const	MSExperiment
getNrSpectra() const	MSExperiment
getPrecursorSpectrum(ConstIterator iterator) const	MSExperiment
getPrecursorSpectrum(int zero_based_index) const	MSExperiment
getPrimaryMSRunPath(StringList &toFill) const	MSExperiment
getProteinIdentifications() const	ExperimentalSettings
getProteinIdentifications()	ExperimentalSettings
getRange() const	RangeManagerContainer< RangeRT, RangeMZ, RangeIntensity, RangeMobility >	inline
getRange()	RangeManagerContainer< RangeRT, RangeMZ, RangeIntensity, RangeMobility >	inline
getRangeForDim(MSDim dim) const	RangeManager< RangeBases... >	inline
getRangeForDim(MSDim dim)	RangeManager< RangeBases... >	inline
getSample() const	ExperimentalSettings
getSample()	ExperimentalSettings
getSize() const	MSExperiment
getSourceFiles() const	ExperimentalSettings
getSourceFiles()	ExperimentalSettings
getSpectra() const	MSExperiment
getSpectra()	MSExperiment
getSpectrum(Size id)	MSExperiment
getSqlRunID() const	MSExperiment
hasPeptideIdentifications() const	MSExperiment
hasRange() const	RangeManager< RangeBases... >	inline
hasZeroIntensities(size_t ms_level) const	MSExperiment
hplc_	ExperimentalSettings	protected
id_	DocumentIdentifier	protected
IMBegin(CoordinateType im) const	MSExperiment
IMEnd(CoordinateType im) const	MSExperiment
instrument_	ExperimentalSettings	protected
IntensityType typedef	MSExperiment
isIMFrame() const	MSExperiment
isMetaEmpty() const	MetaInfoInterface
isSorted(bool check_mz=true) const	MSExperiment
iterator typedef	MSExperiment
Iterator typedef	MSExperiment
meta_	MetaInfoInterface	protected
MetaInfoInterface()	MetaInfoInterface
MetaInfoInterface(const MetaInfoInterface &rhs)	MetaInfoInterface
MetaInfoInterface(MetaInfoInterface &&) noexcept	MetaInfoInterface
metaRegistry()	MetaInfoInterface	static
metaValueExists(const String &name) const	MetaInfoInterface
metaValueExists(UInt index) const	MetaInfoInterface
minSpanIfSingular(const double min_span)	RangeManager< RangeBases... >	inline
MSExperiment()	MSExperiment
MSExperiment(const MSExperiment &source)	MSExperiment
MSExperiment(MSExperiment &&)=default	MSExperiment
operator!=(const MSExperiment &rhs) const	MSExperiment
RangeManagerContainer< RangeRT, RangeMZ, RangeIntensity, RangeMobility >::operator!=(const RangeManager &rhs) const	RangeManager< RangeBases... >	inline
OpenMS::ExperimentalSettings::operator!=(const ExperimentalSettings &rhs) const	ExperimentalSettings
OpenMS::MetaInfoInterface::operator!=(const MetaInfoInterface &rhs) const	MetaInfoInterface
operator=(const MSExperiment &source)	MSExperiment
operator=(MSExperiment &&) &=default	MSExperiment
operator=(const ExperimentalSettings &source)	MSExperiment
OpenMS::ExperimentalSettings::operator=(ExperimentalSettings &&)=default	ExperimentalSettings
OpenMS::MetaInfoInterface::operator=(const MetaInfoInterface &rhs)	MetaInfoInterface
OpenMS::MetaInfoInterface::operator=(MetaInfoInterface &&) noexcept	MetaInfoInterface
OpenMS::DocumentIdentifier::operator=(const DocumentIdentifier &)=default	DocumentIdentifier
OpenMS::DocumentIdentifier::operator=(DocumentIdentifier &&) &=default	DocumentIdentifier
operator==(const MSExperiment &rhs) const	MSExperiment
RangeManagerContainer< RangeRT, RangeMZ, RangeIntensity, RangeMobility >::operator==(const RangeManager &rhs) const	RangeManager< RangeBases... >	inline
OpenMS::ExperimentalSettings::operator==(const ExperimentalSettings &rhs) const	ExperimentalSettings
OpenMS::MetaInfoInterface::operator==(const MetaInfoInterface &rhs) const	MetaInfoInterface
OpenMS::DocumentIdentifier::operator==(const DocumentIdentifier &rhs) const	DocumentIdentifier
operator[](Size n)	MSExperiment	inline
operator[](Size n) const	MSExperiment	inline
PeakT typedef	MSExperiment
PeakType typedef	MSExperiment
printRange(std::ostream &out) const	RangeManager< RangeBases... >	inline
protein_identifications_	ExperimentalSettings	protected
pushInto(const RangeManager< RangeBasesOther... > &sandbox)	RangeManager< RangeBases... >	inline
pushIntoUnsafe(const RangeManager< RangeBasesOther... > &rhs)	RangeManager< RangeBases... >	inline
RangeManagerContainerType typedef	MSExperiment
RangeManagerType typedef	MSExperiment
removeMetaValue(const String &name)	MetaInfoInterface
removeMetaValue(UInt index)	MetaInfoInterface
reserve(Size n)	MSExperiment	inline
reserveSpaceChromatograms(Size s)	MSExperiment
reserveSpaceSpectra(Size s)	MSExperiment
reset()	MSExperiment
resize(Size n)	MSExperiment	inline
RTBegin(CoordinateType rt) const	MSExperiment
RTBegin(CoordinateType rt)	MSExperiment
RTEnd(CoordinateType rt) const	MSExperiment
RTEnd(CoordinateType rt)	MSExperiment
sample_	ExperimentalSettings	protected
scaleBy(const double factor)	RangeManager< RangeBases... >	inline
set2DData(const Container &container)	MSExperiment	inline
set2DData(const Container &container, const StringList &store_metadata_names)	MSExperiment	inline
set2DData(const Container &container)	MSExperiment	inline
setChromatograms(const std::vector< MSChromatogram > &chromatograms)	MSExperiment
setChromatograms(std::vector< MSChromatogram > &&chromatograms)	MSExperiment
setComment(const String &comment)	ExperimentalSettings
setContacts(const std::vector< ContactPerson > &contacts)	ExperimentalSettings
setDateTime(const DateTime &date)	ExperimentalSettings
setFractionIdentifier(const String &fraction_identifier)	ExperimentalSettings
setHPLC(const HPLC &hplc)	ExperimentalSettings
setIdentifier(const String &id)	DocumentIdentifier
setInstrument(const Instrument &instrument)	ExperimentalSettings
setLoadedFilePath(const String &file_name)	DocumentIdentifier
setLoadedFileType(const String &file_name)	DocumentIdentifier
setMetaValue(const String &name, const DataValue &value)	MetaInfoInterface
setMetaValue(UInt index, const DataValue &value)	MetaInfoInterface
setProteinIdentifications(const std::vector< ProteinIdentification > &protein_identifications)	ExperimentalSettings
setSample(const Sample &sample)	ExperimentalSettings
setSourceFiles(const std::vector< SourceFile > &source_files)	ExperimentalSettings
setSpectra(const std::vector< MSSpectrum > &spectra)	MSExperiment
setSpectra(std::vector< MSSpectrum > &&spectra)	MSExperiment
setSqlRunID(UInt64 id)	MSExperiment
size() const noexcept	MSExperiment	inline
sortChromatograms(bool sort_rt=true)	MSExperiment
sortSpectra(bool sort_mz=true)	MSExperiment
source_files_	ExperimentalSettings	protected
spectra_	MSExperiment	protected
SpectrumType typedef	MSExperiment
static_for_each_base_(Visitor &&visitor)	RangeManager< RangeBases... >	inlineprotectedstatic
swap(MSExperiment &from)	MSExperiment
OpenMS::ExperimentalSettings::swap(MetaInfoInterface &rhs)	MetaInfoInterface
OpenMS::ExperimentalSettings::swap(DocumentIdentifier &from)	DocumentIdentifier
ThisRangeType typedef	RangeManagerContainer< RangeRT, RangeMZ, RangeIntensity, RangeMobility >
updateRanges() override	MSExperiment	virtual
updateRanges(Int ms_level)	MSExperiment
value_type typedef	MSExperiment
~DocumentIdentifier()	DocumentIdentifier	virtual
~ExperimentalSettings() override	ExperimentalSettings
~MetaInfoInterface()	MetaInfoInterface
~MSExperiment() override	MSExperiment
~RangeManagerContainer()=default	RangeManagerContainer< RangeRT, RangeMZ, RangeIntensity, RangeMobility >	virtual