| OpenMS 2.5.0

ProtonDistributionModel Member List

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

bb_charge_ | ProtonDistributionModel | protected
bb_charge_full_ | ProtonDistributionModel | protected
bb_charge_ion_c_term_ | ProtonDistributionModel | protected
bb_charge_ion_n_term_ | ProtonDistributionModel | protected
calcChargeStateIntensities_(const AASequence &peptide, const AASequence &n_term_ion, const AASequence &c_term_ion, Int charge, Residue::ResidueType n_term_type, std::vector< double > &n_term_intensities, std::vector< double > &c_term_intensities, FragmentationType type) | ProtonDistributionModel | protected
calcChargeStateIntensities_(const AASequence &peptide, const AASequence &n_term_ion, const AASequence &c_term_ion, Int charge, Residue::ResidueType n_term_type, double &n_term1, double &c_term1, double &n_term2, double &c_term2, FragmentationType type) | ProtonDistributionModel | protected
calculateProtonDistribution_(const AASequence &peptide, Int charge, Residue::ResidueType res_type=Residue::YIon, bool fixed_proton=false, Size cleavage_site=0, bool use_most_basic_site=false) | ProtonDistributionModel | protected
calculateProtonDistributionCharge1_(const AASequence &peptide, Residue::ResidueType res_type) | ProtonDistributionModel | protected
calculateProtonDistributionCharge2_(const AASequence &peptide, Residue::ResidueType res_type, bool fixed_proton, Size cleavage_site, bool use_most_basic_site) | ProtonDistributionModel | protected
calculateProtonDistributionGreater2_(const AASequence &peptide, Int charge, Residue::ResidueType res_type) | ProtonDistributionModel | protected
calculateProtonDistributionIonPair_(const AASequence &peptide, Residue::ResidueType type, Size cleavage_site) | ProtonDistributionModel | protected
ChargeDirected enum value | ProtonDistributionModel |
ChargeRemote enum value | ProtonDistributionModel |
check_defaults_ | DefaultParamHandler | protected
DefaultParamHandler(const String &name) | DefaultParamHandler |
DefaultParamHandler(const DefaultParamHandler &rhs) | DefaultParamHandler |
defaults_ | DefaultParamHandler | protected
defaultsToParam_() | DefaultParamHandler | protected
E_ | ProtonDistributionModel | protected
E_c_term_ | ProtonDistributionModel | protected
E_n_term_ | ProtonDistributionModel | protected
error_name_ | DefaultParamHandler | protected
FragmentationType enum name | ProtonDistributionModel |
getChargeStateIntensities(const AASequence &peptide, const AASequence &n_term_ion, const AASequence &c_term_ion, Int charge, Residue::ResidueType n_term_type, std::vector< double > &n_term_intensities, std::vector< double > &c_term_intensities, FragmentationType type) | ProtonDistributionModel |
getDefaults() const | DefaultParamHandler |
getLeftAndRightGBValues_(const AASequence &peptide, double &left_gb, double &right_gb, Size position) | ProtonDistributionModel | protected
getName() const | DefaultParamHandler |
getParameters() const | DefaultParamHandler |
getProtonDistribution(std::vector< double > &bb_charges, std::vector< double > &sc_charges, const AASequence &peptide, Int charge, Residue::ResidueType res_type=Residue::YIon) | ProtonDistributionModel |
getSubsections() const | DefaultParamHandler |
operator=(const ProtonDistributionModel &pdm) | ProtonDistributionModel |
OpenMS::DefaultParamHandler::operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | virtual
operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | virtual
param_ | DefaultParamHandler | protected
ProtonDistributionModel() | ProtonDistributionModel |
ProtonDistributionModel(const ProtonDistributionModel &model) | ProtonDistributionModel |
sc_charge_ | ProtonDistributionModel | protected
sc_charge_full_ | ProtonDistributionModel | protected
sc_charge_ion_c_term_ | ProtonDistributionModel | protected
sc_charge_ion_n_term_ | ProtonDistributionModel | protected
setName(const String &name) | DefaultParamHandler |
setParameters(const Param &param) | DefaultParamHandler |
setPeptideProtonDistribution(const std::vector< double > &bb_charge, const std::vector< double > &sc_charge) | ProtonDistributionModel |
SideChain enum value | ProtonDistributionModel |
subsections_ | DefaultParamHandler | protected
updateMembers_() | DefaultParamHandler | protected virtual
warn_empty_defaults_ | DefaultParamHandler | protected
~DefaultParamHandler() | DefaultParamHandler | virtual
~ProtonDistributionModel() override | ProtonDistributionModel |