createProteinToPeptideLinks_(const std::map< String, std::vector< PeptideIdentification > > &map_run_to_pepids, MapAccPepType &map_run_accession_to_pephits) | MzTabFile | protectedstatic |
extractNumberOfSubSamples_(const std::map< String, std::vector< ProteinIdentification > > &map_run_to_proids) | MzTabFile | protectedstatic |
extractNumPeptides_(const String &common_identifier, const String &protein_accession, const MapAccPepType &map_run_accesion_to_peptides) | MzTabFile | protectedstatic |
extractNumPeptidesDistinct_(String common_identifier, String protein_accession, const MapAccPepType &map_run_accesion_to_peptides) | MzTabFile | protectedstatic |
extractNumPeptidesUnambiguous_(String common_identifier, String protein_accession, const MapAccPepType &map_run_accesion_to_peptides) | MzTabFile | protectedstatic |
extractPeptideModifications_(const PeptideHit &peptide_hit) | MzTabFile | protectedstatic |
extractProteinAccession_(const PeptideHit &peptide_hit) | MzTabFile | protectedstatic |
generateMzTabMetaDataSection_(const MzTabMetaData &map, StringList &sl) const | MzTabFile | protected |
generateMzTabPeptideHeader_(Int n_subsamples, const std::vector< String > &optional_protein_columns) const | MzTabFile | protected |
generateMzTabPeptideSection_(const MzTabPeptideSectionData &map, StringList &sl) const | MzTabFile | protected |
generateMzTabPeptideSectionRow_(const MzTabPeptideSectionRow &row, const String &unit_id) const | MzTabFile | protected |
generateMzTabProteinHeader_(Int n_subsamples, const std::vector< String > &optional_protein_columns) const | MzTabFile | protected |
generateMzTabProteinSection_(const MzTabProteinSectionData &map, StringList &sl) const | MzTabFile | protected |
generateMzTabProteinSectionRow_(const MzTabProteinSectionRow &row, const String &unit_id) const | MzTabFile | protected |
generateMzTabSmallMoleculeHeader_(Int n_subsamples, const std::vector< String > &optional_smallmolecule_columns) const | MzTabFile | protected |
generateMzTabSmallMoleculeSection_(const MzTabSmallMoleculeSectionData &map, StringList &sl) const | MzTabFile | protected |
generateMzTabSmallMoleculeSectionRow_(const MzTabSmallMoleculeSectionRow &row, const String &unit_id) const | MzTabFile | protected |
keepFirstPSM_(std::vector< PeptideIdentification >::iterator begin, std::vector< PeptideIdentification >::iterator end) | MzTabFile | protectedstatic |
load(const String &filename, MzTab &mz_tab) | MzTabFile | |
MapAccPepType typedef | MzTabFile | |
mapSearchEngineScoreToCvParam_(const String &openms_search_engine_name, DoubleReal score, String score_type) | MzTabFile | protectedstatic |
mapSearchEngineToCvParam_(const String &openms_search_engine_name) | MzTabFile | protectedstatic |
MzTabFile() | MzTabFile | |
partitionIntoRuns_(const std::vector< PeptideIdentification > &pep_ids, const std::vector< ProteinIdentification > &pro_ids, std::map< String, std::vector< PeptideIdentification > > &map_run_to_pepids, std::map< String, std::vector< ProteinIdentification > > &map_run_to_proids) | MzTabFile | protectedstatic |
sortPSM_(std::vector< PeptideIdentification >::iterator begin, std::vector< PeptideIdentification >::iterator end) | MzTabFile | protectedstatic |
store(const String &filename, const std::vector< ProteinIdentification > &protein_ids, const std::vector< PeptideIdentification > &peptide_ids, String in, String document_id) const | MzTabFile | |
store(const String &filename, const MzTab &mz_tab) const | MzTabFile | |
writePeptideHeader_(SVOutStream &output, std::map< String, Size > n_sub_samples) | MzTabFile | protectedstatic |
writeProteinData_(SVOutStream &output, const ProteinIdentification &prot_id, Size run_count, String input_filename, bool has_coverage, const MapAccPepType &map_run_accesion_to_peptides, const std::map< String, Size > &map_run_to_num_sub) | MzTabFile | protectedstatic |
writeProteinHeader_(SVOutStream &output, std::map< String, Size > n_sub_samples) | MzTabFile | protectedstatic |
~MzTabFile() | MzTabFile | |