OpenMS  2.7.0
FeatureFinderAlgorithmPicked Member List

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

abort_(const Seed &seed, const String &reason)FeatureFinderAlgorithmPickedprotected
abort_reasons_FeatureFinderAlgorithmPickedprotected
aborts_FeatureFinderAlgorithmPickedprotected
ChargedIndexSet typedefFeatureFinderDefs
check_defaults_DefaultParamHandlerprotected
checkFeatureQuality_(TraceFitter *fitter, MassTraces &feature_traces, const double &seed_mz, const double &min_feature_score, String &error_msg, double &fit_score, double &correlation, double &final_score)FeatureFinderAlgorithmPickedprotected
chooseTraceFitter_(double &tau)FeatureFinderAlgorithmPickedprotected
CoordinateType typedefFeatureFinderAlgorithm
create()FeatureFinderAlgorithmPickedstatic
cropFeature_(TraceFitter *fitter, const MassTraces &traces, MassTraces &new_traces)FeatureFinderAlgorithmPickedprotected
debug_FeatureFinderAlgorithmPickedprotected
DefaultParamHandler(const String &name)DefaultParamHandler
DefaultParamHandler(const DefaultParamHandler &rhs)DefaultParamHandler
DefaultParamHandler()DefaultParamHandlerprivate
defaults_DefaultParamHandlerprotected
defaultsToParam_()DefaultParamHandlerprotected
error_name_DefaultParamHandlerprotected
extendMassTrace_(MassTrace &trace, SignedSize spectrum_index, double mz, bool increase_rt, Size meta_index_overall, double min_rt=0.0, double max_rt=0.0) constFeatureFinderAlgorithmPickedprotected
extendMassTraces_(const IsotopePattern &pattern, MassTraces &traces, Size meta_index_overall) constFeatureFinderAlgorithmPickedprotected
FeatureFinderAlgorithm()FeatureFinderAlgorithminline
FeatureFinderAlgorithm(const FeatureFinderAlgorithm &)FeatureFinderAlgorithmprivate
FeatureFinderAlgorithmPicked()FeatureFinderAlgorithmPicked
FeatureFinderAlgorithmPicked(const FeatureFinderAlgorithmPicked &)FeatureFinderAlgorithmPickedprivate
features_FeatureFinderAlgorithmPicked
ff_FeatureFinderAlgorithmPicked
findBestIsotopeFit_(const Seed &center, UInt charge, IsotopePattern &best_pattern) constFeatureFinderAlgorithmPickedprotected
findIsotope_(double pos, Size spectrum_index, IsotopePattern &pattern, Size pattern_index, Size &peak_index) constFeatureFinderAlgorithmPickedprotected
Flag enum nameFeatureFinderDefs
FloatDataArrays typedefFeatureFinderAlgorithmPicked
getDefaultParameters() constFeatureFinderAlgorithminlinevirtual
getDefaults() constDefaultParamHandler
getIsotopeDistribution_(double mass) constFeatureFinderAlgorithmPickedprotected
getName() constDefaultParamHandler
getParameters() constDefaultParamHandler
getProductName()FeatureFinderAlgorithmPickedstatic
getSubsections() constDefaultParamHandler
IndexPair typedefFeatureFinderDefs
IndexSet typedefFeatureFinderDefs
intensity_bins_FeatureFinderAlgorithmPickedprotected
intensity_mz_step_FeatureFinderAlgorithmPickedprotected
intensity_percentage_FeatureFinderAlgorithmPickedprotected
intensity_percentage_optional_FeatureFinderAlgorithmPickedprotected
intensity_rt_step_FeatureFinderAlgorithmPickedprotected
intensity_thresholds_FeatureFinderAlgorithmPickedprotected
intensityScore_(Size spectrum, Size peak) constFeatureFinderAlgorithmPickedprotected
intensityScore_(Size rt_bin, Size mz_bin, double intensity) constFeatureFinderAlgorithmPickedprotected
IntensityType typedefFeatureFinderAlgorithm
intersection_(const Feature &f1, const Feature &f2) constFeatureFinderAlgorithmPickedprotected
isotope_distributions_FeatureFinderAlgorithmPickedprotected
IsotopePattern typedefFeatureFinderAlgorithmPickedprotected
isotopeScore_(const TheoreticalIsotopePattern &isotopes, IsotopePattern &pattern, bool consider_mz_distances) constFeatureFinderAlgorithmPickedprotected
log_FeatureFinderAlgorithmPickedmutableprotected
map_FeatureFinderAlgorithmPickedprotected
MapType typedefFeatureFinderAlgorithmPicked
mass_window_width_FeatureFinderAlgorithmPickedprotected
MassTrace typedefFeatureFinderAlgorithmPickedprotected
MassTraces typedefFeatureFinderAlgorithmPickedprotected
max_feature_intersection_FeatureFinderAlgorithmPickedprotected
max_missing_trace_peaks_FeatureFinderAlgorithmPickedprotected
max_rt_span_FeatureFinderAlgorithmPickedprotected
min_isotope_fit_FeatureFinderAlgorithmPickedprotected
min_rt_span_FeatureFinderAlgorithmPickedprotected
min_spectra_FeatureFinderAlgorithmPickedprotected
min_trace_score_FeatureFinderAlgorithmPickedprotected
nearest_(double pos, const MSSpectrum &spec, Size start) constFeatureFinderAlgorithmPickedprotected
operator=(const FeatureFinderAlgorithmPicked &)FeatureFinderAlgorithmPickedprivate
OpenMS::DefaultParamHandler::operator=(const DefaultParamHandler &rhs)DefaultParamHandlervirtual
operator==(const DefaultParamHandler &rhs) constDefaultParamHandlervirtual
optional_fit_improvement_FeatureFinderAlgorithmPickedprotected
param_DefaultParamHandlerprotected
pattern_tolerance_FeatureFinderAlgorithmPickedprotected
PeakType typedefFeatureFinderAlgorithmPickedprotected
positionScore_(double pos1, double pos2, double allowed_deviation) constFeatureFinderAlgorithmPickedprotected
registerChildren()FeatureFinderAlgorithmstatic
reported_mz_FeatureFinderAlgorithmPickedprotected
run() overrideFeatureFinderAlgorithmPickedvirtual
Seed typedefFeatureFinderAlgorithmPickedprotected
seeds_FeatureFinderAlgorithmPickedprotected
setData(const MapType &map, FeatureMap &features, FeatureFinder &ff)FeatureFinderAlgorithminline
setName(const String &name)DefaultParamHandler
setParameters(const Param &param)DefaultParamHandler
setSeeds(const FeatureMap &seeds) overrideFeatureFinderAlgorithmPickedvirtual
slope_bound_FeatureFinderAlgorithmPickedprotected
SpectrumType typedefFeatureFinderAlgorithmPicked
subsections_DefaultParamHandlerprotected
TheoreticalIsotopePattern typedefFeatureFinderAlgorithmPickedprotected
trace_tolerance_FeatureFinderAlgorithmPickedprotected
UNUSED enum valueFeatureFinderDefs
updateMembers_() overrideFeatureFinderAlgorithmPickedprotectedvirtual
USED enum valueFeatureFinderDefs
warn_empty_defaults_DefaultParamHandlerprotected
writeFeatureDebugInfo_(TraceFitter *fitter, const MassTraces &traces, const MassTraces &new_traces, bool feature_ok, const String error_msg, const double final_score, const Int plot_nr, const PeakType &peak, const String path="debug/features/")FeatureFinderAlgorithmPickedprotected
writeParametersToMetaValues(const Param &write_this, MetaInfoInterface &write_here, const String &prefix="")DefaultParamHandlerstatic
~DefaultParamHandler()DefaultParamHandlervirtual
~FeatureFinderAlgorithm() overrideFeatureFinderAlgorithminline