| addModificationToPeptideHit_(Feature &feature, const String &modification) const | SILACLabeler | protected | 
  | applyLabelToProteinHit_(FeatureMapSim &protein_hit, const String &arginine_label, const String &lysine_label) const | SILACLabeler | protected | 
  | BaseLabeler() | BaseLabeler |  | 
  | canModificationBeApplied_(const String &modification_id, const String &aa) const | SILACLabeler | protected | 
  | channel_description_ | BaseLabeler | protected | 
  | check_defaults_ | DefaultParamHandler | protected | 
  | consensus_ | BaseLabeler | protected | 
  | create() | SILACLabeler | inlinestatic | 
  | DefaultParamHandler(const String &name) | DefaultParamHandler |  | 
  | DefaultParamHandler(const DefaultParamHandler &rhs) | DefaultParamHandler |  | 
  | defaults_ | DefaultParamHandler | protected | 
  | defaultsToParam_() | DefaultParamHandler | protected | 
  | error_name_ | DefaultParamHandler | protected | 
  | getChannelIntensityName(const Size channel_index) const | BaseLabeler |  | 
  | getConsensus() | BaseLabeler |  | 
  | getDefaultParameters() const | BaseLabeler | virtual | 
  | getDefaults() const | DefaultParamHandler |  | 
  | getDescription() const | BaseLabeler |  | 
  | getName() const | DefaultParamHandler |  | 
  | getParameters() const | DefaultParamHandler |  | 
  | getProductName() | SILACLabeler | inlinestatic | 
  | getSubsections() const | DefaultParamHandler |  | 
  | getUnmodifiedSequence_(const Feature &feature, const String &arginine_label, const String &lysine_label) const | SILACLabeler | protected | 
  | heavy_channel_arginine_label_ | SILACLabeler | protected | 
  | heavy_channel_lysine_label_ | SILACLabeler | protected | 
  | HEAVY_FEATURE_MAPID_ | SILACLabeler | privatestatic | 
  | LIGHT_FEATURE_MAPID_ | SILACLabeler | privatestatic | 
  | medium_channel_arginine_label_ | SILACLabeler | protected | 
  | medium_channel_lysine_label_ | SILACLabeler | protected | 
  | MEDIUM_FEATURE_MAPID_ | SILACLabeler | privatestatic | 
  | mergeAllChannelFeatures_(Feature &heavy_channel_feature, const String &unmodified_feature_sequence, Map< String, Feature > &light_channel_feature_index, Map< String, Feature > &medium_channel_feature_index) const | SILACLabeler | protected | 
  | mergeFeatures_(Feature &labeled_channel_feature, const String &unmodified_sequence, Map< String, Feature > &unlabeled_features_index, Int index_channel_id, Int labeled_channel_id) const | SILACLabeler | protected | 
  | mergeProteinAccessions_(Feature &target, const Feature &source) const | BaseLabeler | protected | 
  | mergeProteinIdentificationsMaps_(const FeatureMapSimVector &maps) | BaseLabeler | protected | 
  | operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | virtual | 
  | operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | virtual | 
  | param_ | DefaultParamHandler | protected | 
  | postDetectabilityHook(FeatureMapSimVector &) | SILACLabeler | virtual | 
  | postDigestHook(FeatureMapSimVector &) | SILACLabeler | virtual | 
  | postIonizationHook(FeatureMapSimVector &) | SILACLabeler | virtual | 
  | postRawMSHook(FeatureMapSimVector &) | SILACLabeler | virtual | 
  | postRawTandemMSHook(FeatureMapSimVector &, MSSimExperiment &) | SILACLabeler | virtual | 
  | postRTHook(FeatureMapSimVector &) | SILACLabeler | virtual | 
  | preCheck(Param &) const | SILACLabeler | virtual | 
  | recomputeConsensus_(const FeatureMapSim &simulated_features) | BaseLabeler | protected | 
  | registerChildren() | BaseLabeler | static | 
  | rng_ | BaseLabeler | protected | 
  | setName(const String &name) | DefaultParamHandler |  | 
  | setParameters(const Param ¶m) | DefaultParamHandler |  | 
  | setRnd(const SimRandomNumberGenerator &rng) | BaseLabeler | virtual | 
  | setUpHook(FeatureMapSimVector &) | SILACLabeler | virtual | 
  | SILACLabeler() | SILACLabeler |  | 
  | subsections_ | DefaultParamHandler | protected | 
  | updateMembers_() | SILACLabeler | protectedvirtual | 
  | warn_empty_defaults_ | DefaultParamHandler | protected | 
  | ~BaseLabeler() | BaseLabeler | virtual | 
  | ~DefaultParamHandler() | DefaultParamHandler | virtual | 
  | ~SILACLabeler() | SILACLabeler | virtual |