, including all inherited members.
| anyBoldRedPeptides(const ms_mascotresults &results) const | ms_protein | |
| anyMatchToQuery(const int query) const | ms_protein | |
| anyMatchToQueryAndP(const int query, const int P) const | ms_protein | |
| copyFrom(const ms_protein *src) | ms_protein | |
| DISTINCT_PEPTIDE_FLAGS enum name | ms_protein | |
| DPF_CHARGE enum value | ms_protein | |
| DPF_MODS enum value | ms_protein | |
| DPF_NODUPSAMEQUERY enum value | ms_protein | |
| DPF_SEQUENCE enum value | ms_protein | |
| DPF_UNIQUE enum value | ms_protein | |
| DUPE_Duplicate enum value | ms_protein | |
| DUPE_DuplicateSameQuery enum value | ms_protein | |
| DUPE_HighestScoringDuplicate enum value | ms_protein | |
| DUPE_Ignored enum value | ms_protein | |
| DUPE_NotDuplicate enum value | ms_protein | |
| DUPLICATE enum name | ms_protein | |
| getAccession() const | ms_protein | |
| getComponent(const int componentNumber) const | ms_protein | |
| getCoverage() const | ms_protein | |
| getDB() const | ms_protein | |
| getDistinctPeptide(int distinctIndex, int repeatIndex=1, bool aboveThreshold=false, DISTINCT_PEPTIDE_FLAGS flags=DPF_SEQUENCE) const | ms_protein | |
| getFrame() const | ms_protein | |
| getGrouping() const | ms_protein | |
| getHitNumber() const | ms_protein | |
| getIgnoredQPs(std::vector< int > &q, std::vector< int > &p) const | ms_protein | |
| getLongestPeptideLen() const | ms_protein | |
| getLongestSigPeptideLen() const | ms_protein | |
| getMasses(ms_mascotresfile &resfile, const ms_proteinsummary &summary, const unsigned int flags=MASS_SELECT_MATCH, const int numDecimalPlaces=2) const | ms_protein | |
| getMemberNumber() const | ms_protein | |
| getNonMudpitScore() const | ms_protein | |
| getNumComponents() const | ms_protein | |
| getNumDisplayPeptides(bool aboveThreshold=false) const | ms_protein | |
| getNumDistinctPeptideRepeats(int distinctIndex, bool aboveThreshold=false, DISTINCT_PEPTIDE_FLAGS flags=DPF_SEQUENCE) const | ms_protein | |
| getNumDistinctPeptides(bool aboveThreshold=false, DISTINCT_PEPTIDE_FLAGS flags=DPF_SEQUENCE) const | ms_protein | |
| getNumObservedForEmPAI() const | ms_protein | |
| getNumPeptides() const | ms_protein | |
| getPepNumber(const int q, const int p) const | ms_protein | |
| getPeptideComponentID(const int pepNumber) const | ms_protein | |
| getPeptideDuplicate(const int pepNumber, const bool allowErrTolDuplicate=true) const | ms_protein | |
| getPeptideEnd(const int pepNumber, const ms_peptide::PSM psmComponent=ms_peptide::PSM_COMPLETE) const | ms_protein | |
| getPeptideFrame(const int pepNumber, const ms_peptide::PSM psmComponent=ms_peptide::PSM_COMPLETE) const | ms_protein | |
| getPeptideIonsScore(const int pepNumber) const | ms_protein | |
| getPeptideIsBold(const int pepNumber) const | ms_protein | |
| getPeptideMultiplicity(const int pepNumber, const ms_peptide::PSM psmComponent=ms_peptide::PSM_COMPLETE) const | ms_protein | |
| getPeptideP(const int pepNumber) const | ms_protein | |
| getPeptideQuery(const int pepNumber) const | ms_protein | |
| getPeptideResidueAfter(const int pepNumber, const ms_peptide::PSM psmComponent=ms_peptide::PSM_COMPLETE) const | ms_protein | |
| getPeptideResidueBefore(const int pepNumber, const ms_peptide::PSM psmComponent=ms_peptide::PSM_COMPLETE) const | ms_protein | |
| getPeptideShowCheckbox(const int pepNumber) const | ms_protein | |
| getPeptideStart(const int pepNumber, const ms_peptide::PSM psmComponent=ms_peptide::PSM_COMPLETE) const | ms_protein | |
| getProteinSummaryHit() const | ms_protein | |
| getRMSDeltas(const ms_mascotresults &results) const | ms_protein | |
| getScore() const | ms_protein | |
| getScoreWithET() const | ms_protein | |
| getSimilarProteinDB() const | ms_protein | |
| getSimilarProteinName() const | ms_protein | |
| getSimilarProteins(std::vector< std::string > &accessions, std::vector< int > &dbIdxs) const | ms_protein | |
| getUnmatchedMasses(ms_mascotresfile &resfile, const int numDecimalPlaces=2) const | ms_protein | |
| GROUP enum name | ms_protein | |
| GROUP_COMPLETE enum value | ms_protein | |
| GROUP_FAMILY enum value | ms_protein | |
| GROUP_NO enum value | ms_protein | |
| GROUP_SUBSET enum value | ms_protein | |
| GROUP_UNKNOWN enum value | ms_protein | |
| isASimilarProtein(const ms_protein *prot, const ms_mascotresults *results, const bool groupByQueryNumber=false) | ms_protein | |
| isPMFMixture() const | ms_protein | |
| isSimilarProtein(const std::string &acc, const int dbIdx) const | ms_protein | |
| isUnigene() const | ms_protein | |
| MASS_FLAGS enum name | ms_protein | |
| MASS_NON_SELECT_MATCH enum value | ms_protein | |
| MASS_NON_SELECT_NON_MATCH enum value | ms_protein | |
| MASS_SELECT_MATCH enum value | ms_protein | |
| MASS_SELECT_NON_MATCH enum value | ms_protein | |
| ms_protein(const double score, const std::string accession, const bool updateScoreFromPepScores, const int proteinSummaryHit=0) | ms_protein | |
| ms_protein(const ms_protein &src) | ms_protein | |
| operator<(const ms_protein &lhs, const ms_protein &rhs) | ms_protein | [friend] |
| operator=(const ms_protein &right) | ms_protein | |
| setDB(int dbIdx) | ms_protein | |
| setPeptideIsBold(const int pepNumber) | ms_protein | |
| setPeptideShowCheckbox(const int pepNumber) | ms_protein | |
| sortPeptides(const ms_mascotresults &results, bool keepAlive=false, int keepAlivePercent=0, const char *keepAliveAccession="", int keepAliveCount=0) | ms_protein | |
| ~ms_protein() | ms_protein | |
