| OpenMS 2.5.0

FeatureFinderAlgorithmPicked Member List

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

abort_(const Seed &seed, const String &reason) | FeatureFinderAlgorithmPicked | protected
abort_reasons_ | FeatureFinderAlgorithmPicked | protected
aborts_ | FeatureFinderAlgorithmPicked | protected
ChargedIndexSet typedef | FeatureFinderDefs |
check_defaults_ | DefaultParamHandler | protected
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) | FeatureFinderAlgorithmPicked | protected
chooseTraceFitter_(double &tau) | FeatureFinderAlgorithmPicked | protected
CoordinateType typedef | FeatureFinderAlgorithm |
create() | FeatureFinderAlgorithmPicked | static
cropFeature_(TraceFitter *fitter, const MassTraces &traces, MassTraces &new_traces) | FeatureFinderAlgorithmPicked | protected
debug_ | FeatureFinderAlgorithmPicked | protected
DefaultParamHandler(const String &name) | DefaultParamHandler |
DefaultParamHandler(const DefaultParamHandler &rhs) | DefaultParamHandler |
defaults_ | DefaultParamHandler | protected
defaultsToParam_() | DefaultParamHandler | protected
error_name_ | DefaultParamHandler | protected
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) const | FeatureFinderAlgorithmPicked | protected
extendMassTraces_(const IsotopePattern &pattern, MassTraces &traces, Size meta_index_overall) const | FeatureFinderAlgorithmPicked | protected
FeatureFinderAlgorithm() | FeatureFinderAlgorithm | inline
FeatureFinderAlgorithmPicked() | FeatureFinderAlgorithmPicked |
FeatureFinderAlgorithmPicked(const FeatureFinderAlgorithmPicked &) | FeatureFinderAlgorithmPicked | private
features_ | FeatureFinderAlgorithmPicked |
ff_ | FeatureFinderAlgorithmPicked |
findBestIsotopeFit_(const Seed &center, UInt charge, IsotopePattern &best_pattern) const | FeatureFinderAlgorithmPicked | protected
findIsotope_(double pos, Size spectrum_index, IsotopePattern &pattern, Size pattern_index, Size &peak_index) const | FeatureFinderAlgorithmPicked | protected
Flag enum name | FeatureFinderDefs |
FloatDataArrays typedef | FeatureFinderAlgorithmPicked |
getDefaultParameters() const | FeatureFinderAlgorithm | inline virtual
getDefaults() const | DefaultParamHandler |
getIsotopeDistribution_(double mass) const | FeatureFinderAlgorithmPicked | protected
getName() const | DefaultParamHandler |
getParameters() const | DefaultParamHandler |
getProductName() | FeatureFinderAlgorithmPicked | static
getSubsections() const | DefaultParamHandler |
IndexPair typedef | FeatureFinderDefs |
IndexSet typedef | FeatureFinderDefs |
intensity_bins_ | FeatureFinderAlgorithmPicked | protected
intensity_mz_step_ | FeatureFinderAlgorithmPicked | protected
intensity_percentage_ | FeatureFinderAlgorithmPicked | protected
intensity_percentage_optional_ | FeatureFinderAlgorithmPicked | protected
intensity_rt_step_ | FeatureFinderAlgorithmPicked | protected
intensity_thresholds_ | FeatureFinderAlgorithmPicked | protected
intensityScore_(Size spectrum, Size peak) const | FeatureFinderAlgorithmPicked | protected
intensityScore_(Size rt_bin, Size mz_bin, double intensity) const | FeatureFinderAlgorithmPicked | protected
IntensityType typedef | FeatureFinderAlgorithm |
intersection_(const Feature &f1, const Feature &f2) const | FeatureFinderAlgorithmPicked | protected
isotope_distributions_ | FeatureFinderAlgorithmPicked | protected
IsotopePattern typedef | FeatureFinderAlgorithmPicked | protected
isotopeScore_(const TheoreticalIsotopePattern &isotopes, IsotopePattern &pattern, bool consider_mz_distances) const | FeatureFinderAlgorithmPicked | protected
log_ | FeatureFinderAlgorithmPicked | mutable protected
map_ | FeatureFinderAlgorithmPicked | protected
MapType typedef | FeatureFinderAlgorithmPicked |
mass_window_width_ | FeatureFinderAlgorithmPicked | protected
MassTrace typedef | FeatureFinderAlgorithmPicked | protected
MassTraces typedef | FeatureFinderAlgorithmPicked | protected
max_feature_intersection_ | FeatureFinderAlgorithmPicked | protected
max_missing_trace_peaks_ | FeatureFinderAlgorithmPicked | protected
max_rt_span_ | FeatureFinderAlgorithmPicked | protected
min_isotope_fit_ | FeatureFinderAlgorithmPicked | protected
min_rt_span_ | FeatureFinderAlgorithmPicked | protected
min_spectra_ | FeatureFinderAlgorithmPicked | protected
min_trace_score_ | FeatureFinderAlgorithmPicked | protected
nearest_(double pos, const MSSpectrum &spec, Size start) const | FeatureFinderAlgorithmPicked | protected
operator=(const FeatureFinderAlgorithmPicked &) | FeatureFinderAlgorithmPicked | private
OpenMS::DefaultParamHandler::operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | virtual
operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | virtual
optional_fit_improvement_ | FeatureFinderAlgorithmPicked | protected
param_ | DefaultParamHandler | protected
pattern_tolerance_ | FeatureFinderAlgorithmPicked | protected
PeakType typedef | FeatureFinderAlgorithmPicked | protected
positionScore_(double pos1, double pos2, double allowed_deviation) const | FeatureFinderAlgorithmPicked | protected
registerChildren() | FeatureFinderAlgorithm | static
reported_mz_ | FeatureFinderAlgorithmPicked | protected
run() override | FeatureFinderAlgorithmPicked | virtual
Seed typedef | FeatureFinderAlgorithmPicked | protected
seeds_ | FeatureFinderAlgorithmPicked | protected
setData(const MapType &map, FeatureMap &features, FeatureFinder &ff) | FeatureFinderAlgorithm | inline
setName(const String &name) | DefaultParamHandler |
setParameters(const Param &param) | DefaultParamHandler |
setSeeds(const FeatureMap &seeds) override | FeatureFinderAlgorithmPicked | virtual
slope_bound_ | FeatureFinderAlgorithmPicked | protected
SpectrumType typedef | FeatureFinderAlgorithmPicked |
subsections_ | DefaultParamHandler | protected
TheoreticalIsotopePattern typedef | FeatureFinderAlgorithmPicked | protected
trace_tolerance_ | FeatureFinderAlgorithmPicked | protected
UNUSED enum value | FeatureFinderDefs |
updateMembers_() override | FeatureFinderAlgorithmPicked | protected virtual
USED enum value | FeatureFinderDefs |
warn_empty_defaults_ | DefaultParamHandler | protected
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/") | FeatureFinderAlgorithmPicked | protected
~DefaultParamHandler() | DefaultParamHandler | virtual
~FeatureFinderAlgorithm() override | FeatureFinderAlgorithm | inline