| binarySearchNodes_(String &seq, std::vector< PeptideEntry > &nodes, Size start, Size end) | ProteinResolver | private | 
  | buildingISDGroups_(std::vector< ProteinEntry > &protein_nodes, std::vector< PeptideEntry > &peptide_nodes, std::vector< ISDGroup > &isd_groups) | ProteinResolver | private | 
  | buildingMSDGroups_(std::vector< MSDGroup > &msd_groups, std::vector< ISDGroup > &isd_groups) | ProteinResolver | private | 
  | check_defaults_ | DefaultParamHandler | protected | 
  | clearResult() | ProteinResolver |  | 
  | computeIntensityOfMSD_(std::vector< MSDGroup > &msd_groups) | ProteinResolver | private | 
  | countTargetDecoy(std::vector< MSDGroup > &msd_groups, ConsensusMap &consensus) | ProteinResolver |  | 
  | countTargetDecoy(std::vector< MSDGroup > &msd_groups, std::vector< PeptideIdentification > &peptide_nodes) | ProteinResolver |  | 
  | DefaultParamHandler(const String &name) | DefaultParamHandler |  | 
  | DefaultParamHandler(const DefaultParamHandler &rhs) | DefaultParamHandler |  | 
  | defaults_ | DefaultParamHandler | protected | 
  | defaultsToParam_() | DefaultParamHandler | protected | 
  | error_name_ | DefaultParamHandler | protected | 
  | findPeptideEntry_(String seq, std::vector< PeptideEntry > &nodes) | ProteinResolver | private | 
  | getDefaults() const | DefaultParamHandler |  | 
  | getName() const | DefaultParamHandler |  | 
  | getParameters() const | DefaultParamHandler |  | 
  | getPeptideHit(const ConsensusMap &consensus, const PeptideEntry *peptide) | ProteinResolver | static | 
  | getPeptideHit(const std::vector< PeptideIdentification > &peptide_nodes, const PeptideEntry *peptide) | ProteinResolver | static | 
  | getPeptideIdentification(const ConsensusMap &consensus, const PeptideEntry *peptide) | ProteinResolver | static | 
  | getPeptideIdentification(const std::vector< PeptideIdentification > &peptide_nodes, const PeptideEntry *peptide) | ProteinResolver | static | 
  | getResults() | ProteinResolver |  | 
  | getSubsections() const | DefaultParamHandler |  | 
  | includeMSMSPeptides_(std::vector< PeptideIdentification > &peptide_identifications, std::vector< PeptideEntry > &peptide_nodes) | ProteinResolver | private | 
  | includeMSMSPeptides_(ConsensusMap &consensus, std::vector< PeptideEntry > &peptide_nodes) | ProteinResolver | private | 
  | operator=(const ProteinResolver &rhs) | ProteinResolver |  | 
  | OpenMS::DefaultParamHandler::operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | virtual | 
  | operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | virtual | 
  | param_ | DefaultParamHandler | protected | 
  | primaryProteins_(std::vector< PeptideEntry > &peptide_nodes, std::vector< Size > &reindexed_peptides) | ProteinResolver | private | 
  | protein_data_ | ProteinResolver | private | 
  | ProteinResolver() | ProteinResolver |  | 
  | ProteinResolver(const ProteinResolver &rhs) | ProteinResolver |  | 
  | reindexingNodes_(std::vector< MSDGroup > &msd_groups, std::vector< Size > &reindexed_proteins, std::vector< Size > &reindexed_peptides) | ProteinResolver | private | 
  | resolveConsensus(ConsensusMap &consensus) | ProteinResolver |  | 
  | resolveID(std::vector< PeptideIdentification > &peptide_identifications) | ProteinResolver |  | 
  | resolver_result_ | ProteinResolver | private | 
  | setName(const String &name) | DefaultParamHandler |  | 
  | setParameters(const Param ¶m) | DefaultParamHandler |  | 
  | setProteinData(std::vector< FASTAFile::FASTAEntry > &protein_data) | ProteinResolver |  | 
  | subsections_ | DefaultParamHandler | protected | 
  | traversPeptide_(PeptideEntry *pep_node, ISDGroup &group) | ProteinResolver | private | 
  | traversPeptide_(PeptideEntry *pep_node, MSDGroup &group) | ProteinResolver | private | 
  | traversProtein_(ProteinEntry *prot_node, ISDGroup &group) | ProteinResolver | private | 
  | traversProtein_(ProteinEntry *prot_node, MSDGroup &group) | ProteinResolver | private | 
  | updateMembers_() | DefaultParamHandler | protectedvirtual | 
  | warn_empty_defaults_ | DefaultParamHandler | protected | 
  | ~DefaultParamHandler() | DefaultParamHandler | virtual | 
  | ~ProteinResolver() | ProteinResolver | virtual |