|
| static void | sortPSM_ (std::vector< PeptideIdentification >::iterator begin, std::vector< PeptideIdentification >::iterator end) |
| |
| static void | keepFirstPSM_ (std::vector< PeptideIdentification >::iterator begin, std::vector< PeptideIdentification >::iterator end) |
| |
| static void | 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) |
| | Extract protein and peptide identifications for each run. maps are assumed empty. More...
|
| |
| static void | createProteinToPeptideLinks_ (const std::map< String, std::vector< PeptideIdentification > > &map_run_to_pepids, MapAccPepType &map_run_accession_to_pephits) |
| | create links from protein to peptides More...
|
| |
| static String | extractProteinAccession_ (const PeptideHit &peptide_hit) |
| | Extracts, if possible a unique protein accession for a peptide hit in mzTab format. Otherwise NA is returned. More...
|
| |
| static String | extractPeptideModifications_ (const PeptideHit &peptide_hit) |
| | Extracts, modifications and positions of a peptide hit in mzTab format. More...
|
| |
| static String | mapSearchEngineToCvParam_ (const String &openms_search_engine_name) |
| | Map search engine identifier to CV, param etc. More...
|
| |
| static String | mapSearchEngineScoreToCvParam_ (const String &openms_search_engine_name, DoubleReal score, String score_type) |
| |
| static String | extractNumPeptides_ (const String &common_identifier, const String &protein_accession, const MapAccPepType &map_run_accesion_to_peptides) |
| |
| static String | extractNumPeptidesDistinct_ (String common_identifier, String protein_accession, const MapAccPepType &map_run_accesion_to_peptides) |
| |
| static String | extractNumPeptidesUnambiguous_ (String common_identifier, String protein_accession, const MapAccPepType &map_run_accesion_to_peptides) |
| |
| static std::map< String, Size > | extractNumberOfSubSamples_ (const std::map< String, std::vector< ProteinIdentification > > &map_run_to_proids) |
| |
| static void | writePeptideHeader_ (SVOutStream &output, std::map< String, Size > n_sub_samples) |
| |
| static void | writeProteinHeader_ (SVOutStream &output, std::map< String, Size > n_sub_samples) |
| |
| static void | 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) |
| |
File adapter for MzTab files.