| OpenMS 2.5.0

IDFilter Member List

This is the complete list of members for IDFilter, including all inherited members.

annotateBestPerPeptide(std::vector< PeptideIdentification > &pep_ids, bool ignore_mods, bool ignore_charges, Size nr_best_spectrum) | IDFilter | inline static
annotateBestPerPeptidePerRun(const std::vector< ProteinIdentification > &prot_ids, std::vector< PeptideIdentification > &pep_ids, bool ignore_mods, bool ignore_charges, Size nr_best_spectrum) | IDFilter | inline static
annotateBestPerPeptidePerRunWithData(RunToSequenceToChargeToPepHitP &best_peps_per_run, std::vector< PeptideIdentification > &pep_ids, bool ignore_mods, bool ignore_charges, Size nr_best_spectrum) | IDFilter | inline static
annotateBestPerPeptideWithData(SequenceToChargeToPepHitP &best_pep, PeptideIdentification &pep, bool ignore_mods, bool ignore_charges, Size nr_best_spectrum) | IDFilter | inline static
ChargeToPepHitP typedef | IDFilter |
countHits(const std::vector< IdentificationType > &ids) | IDFilter | inline static
extractPeptideSequences(const std::vector< PeptideIdentification > &peptides, std::set< String > &sequences, bool ignore_mods=false) | IDFilter | static
filterHitsByRank(std::vector< IdentificationType > &ids, Size min_rank, Size max_rank) | IDFilter | inline static
filterHitsByScore(std::vector< IdentificationType > &ids, double threshold_score) | IDFilter | inline static
filterHitsByScore(IdentificationType &id, double threshold_score) | IDFilter | inline static
filterHitsByScore(PeakMap &experiment, double peptide_threshold_score, double protein_threshold_score) | IDFilter | inline static
filterPeptideEvidences(Filter &filter, std::vector< PeptideIdentification > &peptides) | IDFilter | static
FilterPeptideEvidences(EvidenceFilter &filter, std::vector< PeptideIdentification > &peptides) | IDFilter | inline static
filterPeptidesByCharge(std::vector< PeptideIdentification > &peptides, Int min_charge, Int max_charge) | IDFilter | static
filterPeptidesByLength(std::vector< PeptideIdentification > &peptides, Size min_length, Size max_length=UINT_MAX) | IDFilter | static
filterPeptidesByMZ(std::vector< PeptideIdentification > &peptides, double min_mz, double max_mz) | IDFilter | static
filterPeptidesByMZError(std::vector< PeptideIdentification > &peptides, double mass_error, bool unit_ppm) | IDFilter | static
filterPeptidesByRT(std::vector< PeptideIdentification > &peptides, double min_rt, double max_rt) | IDFilter | static
filterPeptidesByRTPredictPValue(std::vector< PeptideIdentification > &peptides, const String &metavalue_key, double threshold=0.05) | IDFilter | static
filterQueryMatchesByScore(IdentificationData &id_data, IdentificationData::ScoreTypeRef score_ref, double cutoff) | IDFilter | static
getBestHit(const std::vector< IdentificationType > &identifications, bool assume_sorted, typename IdentificationType::HitType &best_hit) | IDFilter | inline static
IDFilter() | IDFilter |
keepBestMatchPerQuery(IdentificationData &id_data, IdentificationData::ScoreTypeRef score_ref) | IDFilter | static
keepBestPeptideHits(std::vector< PeptideIdentification > &peptides, bool strict=false) | IDFilter | static
keepBestPerPeptide(std::vector< PeptideIdentification > &pep_ids, bool ignore_mods, bool ignore_charges, Size nr_best_spectrum) | IDFilter | inline static
keepBestPerPeptidePerRun(std::vector< ProteinIdentification > &prot_ids, std::vector< PeptideIdentification > &pep_ids, bool ignore_mods, bool ignore_charges, Size nr_best_spectrum) | IDFilter | inline static
keepBestPerPeptidePerRun(MapType &prot_and_pep_ids, bool ignore_mods, bool ignore_charges, Size nr_best_spectrum) | IDFilter | inline static
keepHitsMatchingProteins(std::vector< IdentificationType > &ids, const std::set< String > &accessions) | IDFilter | inline static
keepHitsMatchingProteins(PeakMap &experiment, const std::vector< FASTAFile::FASTAEntry > &proteins) | IDFilter | inline static
keepMatchingItems(Container &items, const Predicate &pred) | IDFilter | inline static
keepMatchingItemsUnroll(IDContainer &items, const Predicate &pred) | IDFilter | inline static
keepMatchingPeptideHits(MapType &prot_and_pep_ids, Predicate &pred) | IDFilter | inline static
keepNBestHits(std::vector< IdentificationType > &ids, Size n) | IDFilter | inline static
keepNBestHits(PeakMap &experiment, Size n) | IDFilter | inline static
keepNBestPeptideHits(MapType &map, Size n) | IDFilter | inline static
keepPeptidesWithMatchingModifications(std::vector< PeptideIdentification > &peptides, const std::set< String > &modifications) | IDFilter | static
keepPeptidesWithMatchingSequences(std::vector< PeptideIdentification > &peptides, const std::vector< PeptideIdentification > &good_peptides, bool ignore_mods=false) | IDFilter | static
keepUniquePeptidesPerProtein(std::vector< PeptideIdentification > &peptides) | IDFilter | static
removeDecoyHits(std::vector< IdentificationType > &ids) | IDFilter | inline static
removeDecoys(IdentificationData &id_data) | IDFilter | static
removeDuplicatePeptideHits(std::vector< PeptideIdentification > &peptides, bool seq_only=false) | IDFilter | static
removeEmptyIdentifications(std::vector< IdentificationType > &ids) | IDFilter | inline static
removeEmptyIdentifications(MapType &prot_and_pep_ids) | IDFilter | inline static
removeHitsMatchingProteins(std::vector< IdentificationType > &ids, const std::set< String > accessions) | IDFilter | inline static
removeMatchingItems(Container &items, const Predicate &pred) | IDFilter | inline static
removeMatchingItemsUnroll(IDContainer &items, const Predicate &pred) | IDFilter | inline static
removeMatchingPeptideHits(MapType &prot_and_pep_ids, Predicate &pred) | IDFilter | inline static
removePeptidesWithMatchingModifications(std::vector< PeptideIdentification > &peptides, const std::set< String > &modifications) | IDFilter | static
removePeptidesWithMatchingSequences(std::vector< PeptideIdentification > &peptides, const std::vector< PeptideIdentification > &bad_peptides, bool ignore_mods=false) | IDFilter | static
removeUnreferencedProteins(std::vector< ProteinIdentification > &proteins, const std::vector< PeptideIdentification > &peptides) | IDFilter | static
RunToSequenceToChargeToPepHitP typedef | IDFilter |
SequenceToChargeToPepHitP typedef | IDFilter |
updateHitRanks(std::vector< IdentificationType > &ids) | IDFilter | inline static
updateProteinGroups(std::vector< ProteinIdentification::ProteinGroup > &groups, const std::vector< ProteinHit > &hits) | IDFilter | static
updateProteinReferences(std::vector< PeptideIdentification > &peptides, const std::vector< ProteinIdentification > &proteins, bool remove_peptides_without_reference=false) | IDFilter | static
updateProteinReferences(ConsensusMap &cmap, bool remove_peptides_without_reference=false) | IDFilter | static
~IDFilter() | IDFilter | virtual