Matrix Science Mascot Parser toolkit
 
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ms_protein Member List

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

anyBoldRedPeptides(const ms_mascotresults &results) constms_protein
anyMatchToQuery(const int query) constms_protein
anyMatchToQueryAndP(const int query, const int P) constms_protein
copyFrom(const ms_protein *src)ms_protein
DISTINCT_PEPTIDE_FLAGS enum namems_protein
DPF_CHARGE enum valuems_protein
DPF_MODS enum valuems_protein
DPF_NODUPSAMEQUERY enum valuems_protein
DPF_SEQUENCE enum valuems_protein
DPF_UNIQUE enum valuems_protein
DUPE_Duplicate enum valuems_protein
DUPE_DuplicateSameQuery enum valuems_protein
DUPE_HighestScoringDuplicate enum valuems_protein
DUPE_Ignored enum valuems_protein
DUPE_NotDuplicate enum valuems_protein
DUPLICATE enum namems_protein
getAccession() constms_protein
getComponent(const int componentNumber) constms_protein
getCoverage() constms_protein
getDB() constms_protein
getDistinctPeptide(int distinctIndex, int repeatIndex=1, bool aboveThreshold=false, DISTINCT_PEPTIDE_FLAGS flags=DPF_SEQUENCE) constms_protein
getFrame() constms_protein
getGrouping() constms_protein
getHitNumber() constms_protein
getIgnoredQPs(std::vector< int > &q, std::vector< int > &p) constms_protein
getLongestPeptideLen() constms_protein
getLongestSigPeptideLen() constms_protein
getMasses(ms_mascotresfilebase &resfile, const ms_proteinsummary &summary, const unsigned int flags=MASS_SELECT_MATCH, const int numDecimalPlaces=2) constms_protein
getMemberNumber() constms_protein
getNonMudpitScore() constms_protein
getNumComponents() constms_protein
getNumDisplayPeptides(bool aboveThreshold=false) constms_protein
getNumDistinctPeptideRepeats(int distinctIndex, bool aboveThreshold=false, DISTINCT_PEPTIDE_FLAGS flags=DPF_SEQUENCE) constms_protein
getNumDistinctPeptides(bool aboveThreshold=false, DISTINCT_PEPTIDE_FLAGS flags=DPF_SEQUENCE) constms_protein
getNumObservedForEmPAI() constms_protein
getNumPeptides() constms_protein
getPepNumber(const int q, const int p) constms_protein
getPeptideComponentID(const int pepNumber) constms_protein
getPeptideDuplicate(const int pepNumber, const bool allowErrTolDuplicate=true) constms_protein
getPeptideEnd(const int pepNumber, const ms_peptide::PSM psmComponent=ms_peptide::PSM_COMPLETE) constms_protein
getPeptideFrame(const int pepNumber, const ms_peptide::PSM psmComponent=ms_peptide::PSM_COMPLETE) constms_protein
getPeptideIonsScore(const int pepNumber) constms_protein
getPeptideIsBold(const int pepNumber) constms_protein
getPeptideMultiplicity(const int pepNumber, const ms_peptide::PSM psmComponent=ms_peptide::PSM_COMPLETE) constms_protein
getPeptideP(const int pepNumber) constms_protein
getPeptideQuery(const int pepNumber) constms_protein
getPeptideResidueAfter(const int pepNumber, const ms_peptide::PSM psmComponent=ms_peptide::PSM_COMPLETE) constms_protein
getPeptideResidueBefore(const int pepNumber, const ms_peptide::PSM psmComponent=ms_peptide::PSM_COMPLETE) constms_protein
getPeptideShowCheckbox(const int pepNumber) constms_protein
getPeptideStart(const int pepNumber, const ms_peptide::PSM psmComponent=ms_peptide::PSM_COMPLETE) constms_protein
getProteinId() constms_protein
getProteinSummaryHit() constms_protein
getRMSDeltas(const ms_mascotresults &results) constms_protein
getScore() constms_protein
getScoreWithET() constms_protein
getSimilarProteinDB() constms_protein
getSimilarProteinName() constms_protein
getSimilarProteins(std::vector< std::string > &accessions, std::vector< int > &dbIdxs) constms_protein
getUnmatchedMasses(ms_mascotresfilebase &resfile, const int numDecimalPlaces=2) constms_protein
GROUP enum namems_protein
GROUP_COMPLETE enum valuems_protein
GROUP_FAMILY enum valuems_protein
GROUP_NO enum valuems_protein
GROUP_SUBSET enum valuems_protein
GROUP_UNKNOWN enum valuems_protein
isASimilarProtein(const ms_protein *prot, const ms_mascotresults *results, const bool groupByQueryNumber=false)ms_protein
isPMFMixture() constms_protein
isSimilarProtein(const std::string &acc, const int dbIdx) constms_protein
isUnigene() constms_protein
isUpdateScoreFromPepScores() constms_protein
MASS_FLAGS enum namems_protein
MASS_NON_SELECT_MATCH enum valuems_protein
MASS_NON_SELECT_NON_MATCH enum valuems_protein
MASS_SELECT_MATCH enum valuems_protein
MASS_SELECT_NON_MATCH enum valuems_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
ms_protein(ms_protein &&src) noexceptms_protein
operator<ms_proteinfriend
operator=(ms_protein &&right) noexceptms_protein
operator=(const ms_protein &right)ms_protein
setDB(int dbIdx)ms_protein
setPeptideIsBold(const int pepNumber)ms_protein
setPeptideShowCheckbox(const int pepNumber)ms_protein
setProteinId(int64_t proteinId)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