MRMFeatureFinderScoring Member List

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

add_up_spectra_	MRMFeatureFinderScoring	private
check_defaults_	DefaultParamHandler	protected
CMD enum value	ProgressLogger
current_logger_	ProgressLogger	mutableprotected
DefaultParamHandler(const String &name)	DefaultParamHandler
DefaultParamHandler(const DefaultParamHandler &rhs)	DefaultParamHandler
DefaultParamHandler()	DefaultParamHandler	private
defaults_	DefaultParamHandler	protected
defaultsToParam_()	DefaultParamHandler	protected
diascoring_	MRMFeatureFinderScoring	private
emgscoring_	MRMFeatureFinderScoring	private
endProgress() const	ProgressLogger
error_name_	DefaultParamHandler	protected
getDefaults() const	DefaultParamHandler
getLogType() const	ProgressLogger
getName() const	DefaultParamHandler
getParameters() const	DefaultParamHandler
getSubsections() const	DefaultParamHandler
GUI enum value	ProgressLogger
im_extra_drift_	MRMFeatureFinderScoring	private
last_invoke_	ProgressLogger	mutableprotected
LogType enum name	ProgressLogger
logTypeToFactoryName_(LogType type)	ProgressLogger	protectedstatic
mapExperimentToTransitionList(const OpenSwath::SpectrumAccessPtr &input, const OpenSwath::LightTargetedExperiment &transition_exp, TransitionGroupMapType &transition_group_map, TransformationDescription trafo, double rt_extraction_window)	MRMFeatureFinderScoring
ModificationType typedef	MRMFeatureFinderScoring
MRMFeatureFinderScoring()	MRMFeatureFinderScoring
MRMTransitionGroupType typedef	MRMFeatureFinderScoring
ms1_map_	MRMFeatureFinderScoring	private
nextProgress() const	ProgressLogger
NONE enum value	ProgressLogger
OpenMS::operator=(const DefaultParamHandler &rhs)	DefaultParamHandler
OpenMS::ProgressLogger::operator=(const ProgressLogger &other)	ProgressLogger
operator==(const DefaultParamHandler &rhs) const	DefaultParamHandler	virtual
param_	DefaultParamHandler	protected
PeptideRefMap_	MRMFeatureFinderScoring	private
PeptideType typedef	MRMFeatureFinderScoring
pickExperiment(const PeakMap &chromatograms, FeatureMap &output, const TargetedExperiment &transition_exp, const TransformationDescription &trafo, const PeakMap &swath_map)	MRMFeatureFinderScoring
pickExperiment(const OpenSwath::SpectrumAccessPtr &input, FeatureMap &output, const OpenSwath::LightTargetedExperiment &transition_exp, const TransformationDescription &trafo, const std::vector< OpenSwath::SwathMap > &swath_maps, TransitionGroupMapType &transition_group_map)	MRMFeatureFinderScoring
prepareFeatureOutput_(OpenMS::MRMFeature &mrmfeature, bool ms1only, int charge) const	MRMFeatureFinderScoring	private
prepareProteinPeptideMaps_(const OpenSwath::LightTargetedExperiment &transition_exp)	MRMFeatureFinderScoring
ProgressLogger()	ProgressLogger
ProgressLogger(const ProgressLogger &other)	ProgressLogger
ProteinType typedef	MRMFeatureFinderScoring
quantification_cutoff_	MRMFeatureFinderScoring	private
recursion_depth_	ProgressLogger	protectedstatic
rt_extraction_window_	MRMFeatureFinderScoring	private
rt_normalization_factor_	MRMFeatureFinderScoring	private
scoreIdentification_(MRMTransitionGroupType &transition_group_identification, OpenSwathScoring &scorer, const size_t feature_idx, const std::vector< std::string > &native_ids_detection, const double det_intensity_ratio_score, const double det_mi_ratio_score, const std::vector< OpenSwath::SwathMap > &swath_maps) const	MRMFeatureFinderScoring	private
scorePeakgroups(MRMTransitionGroupType &transition_group, const TransformationDescription &trafo, const std::vector< OpenSwath::SwathMap > &swath_maps, FeatureMap &output, bool ms1only=false) const	MRMFeatureFinderScoring
scoring_model_	MRMFeatureFinderScoring	private
setLogType(LogType type) const	ProgressLogger
setMS1Map(OpenSwath::SpectrumAccessPtr ms1_map)	MRMFeatureFinderScoring	inline
setName(const String &name)	DefaultParamHandler
setParameters(const Param &param)	DefaultParamHandler
setProgress(SignedSize value) const	ProgressLogger
setStrictFlag(bool f)	MRMFeatureFinderScoring	inline
sn_bin_count_	MRMFeatureFinderScoring	private
sn_win_len_	MRMFeatureFinderScoring	private
sonarscoring_	MRMFeatureFinderScoring	private
spacing_for_spectra_resampling_	MRMFeatureFinderScoring	private
spectrum_addition_method_	MRMFeatureFinderScoring	private
splitTransitionGroupsDetection_(const MRMTransitionGroupType &transition_group, MRMTransitionGroupType &transition_group_detection) const	MRMFeatureFinderScoring	private
splitTransitionGroupsIdentification_(const MRMTransitionGroupType &transition_group, MRMTransitionGroupType &transition_group_identification, MRMTransitionGroupType &transition_group_identification_decoy) const	MRMFeatureFinderScoring	private
startProgress(SignedSize begin, SignedSize end, const String &label) const	ProgressLogger
stop_report_after_feature_	MRMFeatureFinderScoring	private
strict_	MRMFeatureFinderScoring	private
su_	MRMFeatureFinderScoring	private
subsections_	DefaultParamHandler	protected
TargetedExpType typedef	MRMFeatureFinderScoring
TransitionGroupMapType typedef	MRMFeatureFinderScoring
TransitionType typedef	MRMFeatureFinderScoring
type_	ProgressLogger	mutableprotected
uis_threshold_peak_area_	MRMFeatureFinderScoring	private
uis_threshold_sn_	MRMFeatureFinderScoring	private
updateMembers_() override	MRMFeatureFinderScoring	privatevirtual
warn_empty_defaults_	DefaultParamHandler	protected
write_convex_hull_	MRMFeatureFinderScoring	private
write_log_messages_	MRMFeatureFinderScoring	private
writeParametersToMetaValues(const Param &write_this, MetaInfoInterface &write_here, const String &key_prefix="")	DefaultParamHandler	static
~DefaultParamHandler()	DefaultParamHandler	virtual
~MRMFeatureFinderScoring() override	MRMFeatureFinderScoring
~ProgressLogger()	ProgressLogger	virtual