| check_defaults_ | DefaultParamHandler | protected | 
  | DefaultParamHandler(const String &name) | DefaultParamHandler |  | 
  | DefaultParamHandler(const DefaultParamHandler &rhs) | DefaultParamHandler |  | 
  | defaults_ | DefaultParamHandler | protected | 
  | defaultsToParam_() | DefaultParamHandler | protected | 
  | dia_by_ion_score(SpectrumType spectrum, AASequence &sequence, int charge, double &bseries_score, double &yseries_score) | DIAScoring |  | 
  | dia_byseries_intensity_min_ | DIAScoring | private | 
  | dia_byseries_ppm_diff_ | DIAScoring | private | 
  | dia_centroided_ | DIAScoring | private | 
  | dia_extract_window_ | DIAScoring | private | 
  | dia_isotope_scores(const std::vector< TransitionType > &transitions, SpectrumType spectrum, OpenSwath::IMRMFeature *mrmfeature, double &isotope_corr, double &isotope_overlap) | DIAScoring |  | 
  | dia_massdiff_score(const std::vector< TransitionType > &transitions, SpectrumType spectrum, const std::vector< double > &normalized_library_intensity, double &ppm_score, double &ppm_score_weighted) | DIAScoring |  | 
  | dia_nr_charges_ | DIAScoring | private | 
  | dia_nr_isotopes_ | DIAScoring | private | 
  | diaIsotopeScoresSub_(const std::vector< TransitionType > &transitions, SpectrumType spectrum, std::map< std::string, double > &intensities, double &isotope_corr, double &isotope_overlap) | DIAScoring | private | 
  | DIAScoring() | DIAScoring |  | 
  | DIAScoring(const DIAScoring &rhs) | DIAScoring | private | 
  | error_name_ | DefaultParamHandler | protected | 
  | getDefaults() const | DefaultParamHandler |  | 
  | getFirstIsotopeRelativeIntensities_(const std::vector< TransitionType > &transitions, OpenSwath::IMRMFeature *mrmfeature, std::map< std::string, double > &intensities) | DIAScoring | private | 
  | getName() const | DefaultParamHandler |  | 
  | getParameters() const | DefaultParamHandler |  | 
  | getSubsections() const | DefaultParamHandler |  | 
  | largePeaksBeforeFirstIsotope_(double product_mz, SpectrumType &spectrum, double max_ppm_diff, double main_peak) | DIAScoring | private | 
  | operator=(const DIAScoring &rhs) | DIAScoring | private | 
  | OpenMS::DefaultParamHandler::operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | virtual | 
  | operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | virtual | 
  | param_ | DefaultParamHandler | protected | 
  | PeptideType typedef | DIAScoring | private | 
  | ProteinType typedef | DIAScoring | private | 
  | score_with_isotopes(SpectrumType spectrum, const std::vector< TransitionType > &transitions, double &dotprod, double &manhattan) | DIAScoring |  | 
  | scoreIsotopePattern_(double product_mz, const std::vector< double > &isotopes_int, int putative_fragment_charge) | DIAScoring | private | 
  | set_dia_parameters(double dia_extract_window, double dia_centroided, double dia_byseries_intensity_min, double dia_byseries_ppm_diff, double dia_nr_isotopes, double dia_nr_charges) | DIAScoring |  | 
  | setName(const String &name) | DefaultParamHandler |  | 
  | setParameters(const Param ¶m) | DefaultParamHandler |  | 
  | SpectrumType typedef | DIAScoring | private | 
  | subsections_ | DefaultParamHandler | protected | 
  | TransitionType typedef | DIAScoring | private | 
  | updateMembers_() | DIAScoring | privatevirtual | 
  | warn_empty_defaults_ | DefaultParamHandler | protected | 
  | ~DefaultParamHandler() | DefaultParamHandler | virtual | 
  | ~DIAScoring() | DIAScoring | inlinevirtual |