, including all inherited members.
| anyPercolatorResults() const | ms_peptide | |
| clearReloadableInfo() | ms_peptide | |
| copyFrom(const ms_peptide *src) | ms_peptide | |
| getAmbiguityString(const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getAnyMatch() const | ms_peptide | |
| getAnyProteinTermination(bool &isNterminus, bool &isCterminus, const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getCharge() const | ms_peptide | |
| getComponentStr(const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getDelta() const | ms_peptide | |
| getExpectationValue() const | ms_peptide | |
| getFirstProtAppearedIn() const | ms_peptide | |
| getIntactLinks(ms_linker_site_vector &vec) const | ms_peptide | |
| getIntactLinks() const | ms_peptide | |
| getIonsIntensity() const | ms_peptide | |
| getIonsScore() const | ms_peptide | |
| getIsFromErrorTolerant() const | ms_peptide | |
| getIsFromLibrary() const | ms_peptide | |
| getLessThanMinPepLen() const | ms_peptide | |
| getLocalModsNlStr(const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getLocalModsStr(const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getLoopLinks(ms_linker_site_vector &vec, const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getLoopLinks(const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getMissedCleavages(const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getMonoLinkStr(const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getMrCalc(const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getMrExperimental() const | ms_peptide | |
| getNum13C(const double tol, const std::string tolu, const std::string mass_type) const | ms_peptide | |
| getNumberOfLinkedPeptides() const | ms_peptide | |
| getNumIonsMatched() const | ms_peptide | |
| getNumProteins() const | ms_peptide | |
| getObserved() const | ms_peptide | |
| getPeaksUsedFromIons1() const | ms_peptide | |
| getPeaksUsedFromIons2() const | ms_peptide | |
| getPeaksUsedFromIons3() const | ms_peptide | |
| getPeptideLength(const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getPeptideStr(bool substituteAmbiguous=true, const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getPercolatorScores(double *posteriorErrorProbability, double *qValue, double *internalPercolatorScore, double *mascotIonsScore) const | ms_peptide | |
| getPrettyRank() const | ms_peptide | |
| getPrimaryNlStr(const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getProtein(int num) const | ms_peptide | |
| getProteins() const | ms_peptide | |
| getQuery() const | ms_peptide | |
| getRank() const | ms_peptide | |
| getSeriesUsedStr() const | ms_peptide | |
| getSummedModsNlStr(const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getSummedModsStr(const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| getVarModsStr(const PSM psmComponent=PSM_COMPLETE) const | ms_peptide | |
| isSamePeptideStr(ms_peptide *peptide, bool substituteAmbiguous=true) const | ms_peptide | |
| isSameSummedModsStr(ms_peptide *peptide) const | ms_peptide | |
| isSameVarModsStr(ms_peptide *peptide) const | ms_peptide | |
| ms_peptide() | ms_peptide | |
| ms_peptide(int query, int rank, int missedCleavages, double mrCalc, double delta, double observed, int charge, int numIonsMatched, std::string peptideStr, int peaksUsedFromIons1, std::string varModsStr, double ionsScore, std::string seriesUsedStr, int peaksUsedFromIons2, int peaksUsedFromIons3, const ms_mascotresults *pResults=0, bool storeReloadableInfo=true) | ms_peptide | |
| ms_peptide(const int query, const int rank, const SEARCH_PHASE searchPhase, const int missedCleavages, const double mrCalc, const double delta, const double observed, const int charge, const int numIonsMatched, const std::string &peptideStr, const int peaksUsedFromIons1, const std::string &varModsStr, const std::string &summedModsStr, const std::string &localModsStr, const std::string &monoLinkStr, const ms_linker_site_vector &loopLinks, const double ionsScore, const std::string &seriesUsedStr, const int peaksUsedFromIons2, const int peaksUsedFromIons3, const std::string &primaryNlStr, const std::string &summedModsNlStr, const std::string &localModsNlStr, const std::string &substStr, const std::string &componentStr, const ms_mascotresults *pResults=0, const bool storeReloadableInfo=true) | ms_peptide | |
| ms_peptide(const int query, const int rank, const SEARCH_PHASE searchPhase, const double delta, const double observed, const int charge, const int numIonsMatched, const int peaksUsedFromIons1, const double ionsScore, const std::string &seriesUsedStr, const int peaksUsedFromIons2, const int peaksUsedFromIons3, const ms_peptide &pepAlpha, const ms_peptide &pepBeta, const ms_linker_site &linkerSite, const ms_mascotresults *pResults=0, const bool storeReloadableInfo=true) | ms_peptide | |
| ms_peptide(const ms_peptide &src) | ms_peptide | |
| operator=(const ms_peptide &right) | ms_peptide | |
| PSM enum name | ms_peptide | |
| PSM_COMPLETE enum value | ms_peptide | |
| PSM_CROSSLINK_ALPHA enum value | ms_peptide | |
| PSM_CROSSLINK_BETA enum value | ms_peptide | |
| setLocalModsStr(const std::string str, const PSM psmComponent=PSM_COMPLETE) | ms_peptide | |
| setSummedModsStr(const std::string str, const PSM psmComponent=PSM_COMPLETE) | ms_peptide | |
| setVarModsStr(const std::string str, const PSM psmComponent=PSM_COMPLETE) | ms_peptide | |
| ~ms_peptide() | ms_peptide | |
