| addLossFormula(const EmpiricalFormula &) | Residue | |
| addLossName(const String &name) | Residue | |
| addNTermLossFormula(const EmpiricalFormula &) | Residue | |
| addNTermLossName(const String &name) | Residue | |
| addResidueSet(const String &residue_sets) | Residue | |
| addSynonym(const String &synonym) | Residue | |
| AIon enum value | Residue | |
| average_weight_ | Residue | protected |
| BIon enum value | Residue | |
| BIonMinusH20 enum value | Residue | |
| BIonMinusNH3 enum value | Residue | |
| CIon enum value | Residue | |
| CTerminal enum value | Residue | |
| formula_ | Residue | protected |
| Full enum value | Residue | |
| gb_bb_l_ | Residue | protected |
| gb_bb_r_ | Residue | protected |
| gb_sc_ | Residue | protected |
| getAverageWeight(ResidueType res_type=Full) const | Residue | |
| getBackboneBasicityLeft() const | Residue | |
| getBackboneBasicityRight() const | Residue | |
| getFormula(ResidueType res_type=Full) const | Residue | |
| getInternalToAIon() | Residue | inlinestatic |
| getInternalToBIon() | Residue | inlinestatic |
| getInternalToCIon() | Residue | inlinestatic |
| getInternalToCTerm() | Residue | inlinestatic |
| getInternalToFull() | Residue | inlinestatic |
| getInternalToNTerm() | Residue | inlinestatic |
| getInternalToXIon() | Residue | inlinestatic |
| getInternalToYIon() | Residue | inlinestatic |
| getInternalToZIon() | Residue | inlinestatic |
| getInternalToZp1Ion() | Residue | inlinestatic |
| getInternalToZp2Ion() | Residue | inlinestatic |
| getLossFormulas() const | Residue | |
| getLossNames() const | Residue | |
| getLowMassIons() const | Residue | |
| getModification() const | Residue | |
| getModificationName() const | Residue | |
| getMonoWeight(ResidueType res_type=Full) const | Residue | |
| getName() const | Residue | |
| getNTermLossFormulas() const | Residue | |
| getNTermLossNames() const | Residue | |
| getOneLetterCode() const | Residue | |
| getPiValue() const | Residue | |
| getPka() const | Residue | |
| getPkb() const | Residue | |
| getPkc() const | Residue | |
| getResidueSets() const | Residue | |
| getResidueTypeName(const ResidueType res_type) | Residue | static |
| getSideChainBasicity() const | Residue | |
| getSynonyms() const | Residue | |
| getThreeLetterCode() const | Residue | |
| hasNeutralLoss() const | Residue | |
| hasNTermNeutralLosses() const | Residue | |
| Internal enum value | Residue | |
| internal_formula_ | Residue | protected |
| internal_to_a_monoweight_ | Residue | protectedstatic |
| internal_to_b_monoweight_ | Residue | protectedstatic |
| internal_to_c_monoweight_ | Residue | protectedstatic |
| internal_to_cterm_monoweight_ | Residue | protectedstatic |
| internal_to_full_monoweight_ | Residue | protectedstatic |
| internal_to_nterm_monoweight_ | Residue | protectedstatic |
| internal_to_x_monoweight_ | Residue | protectedstatic |
| internal_to_y_monoweight_ | Residue | protectedstatic |
| internal_to_z_monoweight_ | Residue | protectedstatic |
| internal_to_zp1_monoweight_ | Residue | protectedstatic |
| internal_to_zp2_monoweight_ | Residue | protectedstatic |
| isInResidueSet(const String &residue_set) | Residue | |
| isModified() const | Residue | |
| loss_average_weight_ | Residue | protected |
| loss_formulas_ | Residue | protected |
| loss_mono_weight_ | Residue | protected |
| loss_names_ | Residue | protected |
| low_mass_ions_ | Residue | protected |
| modification_ | Residue | protected |
| mono_weight_ | Residue | protected |
| name_ | Residue | protected |
| NonIdentified enum value | Residue | |
| NTerm_loss_formulas_ | Residue | protected |
| NTerm_loss_names_ | Residue | protected |
| NTerminal enum value | Residue | |
| one_letter_code_ | Residue | protected |
| operator!=(const Residue &residue) const | Residue | |
| operator!=(char one_letter_code) const | Residue | |
| operator<<(std::ostream &os, const Residue &residue) | Residue | friend |
| operator=(const Residue &)=default | Residue | |
| operator=(Residue &&) &=default | Residue | |
| operator==(const Residue &residue) const | Residue | |
| operator==(char one_letter_code) const | Residue | |
| pka_ | Residue | protected |
| pkb_ | Residue | protected |
| pkc_ | Residue | protected |
| Precursor enum value | Residue | |
| Residue() | Residue | |
| Residue(const Residue &)=default | Residue | |
| Residue(Residue &&)=default | Residue | |
| Residue(const String &name, const String &three_letter_code, const String &one_letter_code, const EmpiricalFormula &formula, double pka=0, double pkb=0, double pkc=-1, double gb_sc=0, double gb_bb_l=0, double gb_bb_r=0, const std::set< String > &synonyms=std::set< String >()) | Residue | |
| residue_sets_ | Residue | protected |
| ResidueDB class | Residue | friend |
| ResidueType enum name | Residue | |
| residueTypeToIonLetter(const ResidueType &res_type) | Residue | static |
| setAverageWeight(double weight) | Residue | |
| setBackboneBasicityLeft(double gb_bb_l) | Residue | |
| setBackboneBasicityRight(double gb_bb_r) | Residue | |
| setFormula(const EmpiricalFormula &formula) | Residue | |
| setLossFormulas(const std::vector< EmpiricalFormula > &) | Residue | |
| setLossNames(const std::vector< String > &name) | Residue | |
| setLowMassIons(const std::vector< EmpiricalFormula > &low_mass_ions) | Residue | |
| setModification(const String &name) | Residue | |
| setModification(const ResidueModification *mod) | Residue | |
| setModification(const ResidueModification &mod) | Residue | |
| setModificationByDiffMonoMass(double diffMonoMass) | Residue | |
| setMonoWeight(double weight) | Residue | |
| setName(const String &name) | Residue | |
| setNTermLossFormulas(const std::vector< EmpiricalFormula > &) | Residue | |
| setNTermLossNames(const std::vector< String > &name) | Residue | |
| setOneLetterCode(const String &one_letter_code) | Residue | |
| setPka(double value) | Residue | |
| setPkb(double value) | Residue | |
| setPkc(double value) | Residue | |
| setResidueSets(const std::set< String > &residues_sets) | Residue | |
| setSideChainBasicity(double gb_sc) | Residue | |
| setSynonyms(const std::set< String > &synonyms) | Residue | |
| setThreeLetterCode(const String &three_letter_code) | Residue | |
| SizeOfResidueType enum value | Residue | |
| synonyms_ | Residue | protected |
| three_letter_code_ | Residue | protected |
| toString() const | Residue | |
| Unannotated enum value | Residue | |
| XIon enum value | Residue | |
| YIon enum value | Residue | |
| YIonMinusH20 enum value | Residue | |
| YIonMinusNH3 enum value | Residue | |
| ZIon enum value | Residue | |
| Zp1Ion enum value | Residue | |
| Zp2Ion enum value | Residue | |
| ~Residue() | Residue | virtual |
1.9.1 
