bb_charge_ | ProtonDistributionModel | [protected] |
bb_charge_full_ | 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, UInt cleavage_site=0, bool use_most_basic_site=false) | 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, double &n_term1, double &c_term1, double &n_term2, double &c_term2, FragmentationType type) | ProtonDistributionModel | |
getChargeStateIntensities_(const AASequence &peptide, const AASequence &ion, int charge, Residue::ResidueType res_type) | ProtonDistributionModel | [protected] |
getDefaults() const | DefaultParamHandler | |
getLeftAndRightGBValues_(const AASequence &peptide, double &left_gb, double &right_gb, UInt position) | ProtonDistributionModel | [protected] |
getName() const | DefaultParamHandler | |
getParameters() const | DefaultParamHandler | |
getProtonAffinity_(const AASequence &ion, int charge, Residue::ResidueType res_type) | ProtonDistributionModel | [protected] |
getProtonDistribution(HashMap< UInt, double > &bb_charges, HashMap< UInt, 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] |
setName(const String &name) | DefaultParamHandler | |
setParameters(const Param ¶m) | DefaultParamHandler | |
setPeptideProtonDistribution(const HashMap< UInt, double > &bb_charge, const HashMap< UInt, double > &sc_charge) | ProtonDistributionModel | |
SideChain enum value | ProtonDistributionModel | |
subsections_ | DefaultParamHandler | [protected] |
updateMembers_() | DefaultParamHandler | [protected, virtual] |
~DefaultParamHandler() | DefaultParamHandler | [virtual] |
~ProtonDistributionModel() | ProtonDistributionModel | [virtual] |