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

ambiguous_mods_	NucleicAcidSearchEngine	protected
calculateAndFilterFDR_(IdentificationData &id_data, bool only_top_hits)	NucleicAcidSearchEngine	inlineprotected
calculatePrecursorMass_(double mz, Int charge, Int isotope, double adduct_mass, bool negative_mode)	NucleicAcidSearchEngine	inlineprotected
ConstRibonucleotidePtr typedef	NucleicAcidSearchEngine	private
deisotopeAndSingleChargeMSSpectrum_(MSSpectrum &in, Int min_charge, Int max_charge, double fragment_tolerance, bool fragment_unit_ppm, bool keep_only_deisotoped=false, Size min_isopeaks=3, Size max_isopeaks=10, bool make_single_charged=true)	NucleicAcidSearchEngine	inlineprotected
fragment_ion_codes_	NucleicAcidSearchEngine	protected
generateLFQInput_(IdentificationData &id_data, const String &out_file)	NucleicAcidSearchEngine	inlineprotected
getModifications_(const set< String > &mod_names)	NucleicAcidSearchEngine	inlineprotected
HitsByScore typedef	NucleicAcidSearchEngine	protected
main_(int, const char **) override	NucleicAcidSearchEngine	inlineprotected
NucleicAcidSearchEngine()	NucleicAcidSearchEngine	inline
parseAdduct_(const String &adduct)	NucleicAcidSearchEngine	inlineprotected
postProcessHits_(const PeakMap &exp, vector< HitsByScore > &annotated_hits, IdentificationData &id_data, bool negative_mode)	NucleicAcidSearchEngine	inlineprotected
preprocessSpectra_(PeakMap &exp, double fragment_mass_tolerance, bool fragment_mass_tolerance_unit_ppm, bool single_charge_spectra, bool negative_mode, Int min_charge, Int max_charge, bool include_unknown_charge)	NucleicAcidSearchEngine	inlineprotected
registerIDMetaData_(IdentificationData &id_data, const String &in_mzml, const vector< String > &primary_files, const IdentificationData::DBSearchParam &search_param)	NucleicAcidSearchEngine	inlineprotected
registerOptionsAndFlags_()	NucleicAcidSearchEngine	inlineprotected
resolve_ambiguous_mods_	NucleicAcidSearchEngine	protected
resolveAmbiguousMods_(HitsByScore &hits)	NucleicAcidSearchEngine	inlineprotected