AASequenceIdentity(const String &sequence, const String &decoy) | MRMDecoy | |
begin_ | ProgressLogger | mutableprotected |
CMD enum value | ProgressLogger | |
correctMasses(OpenMS::TargetedExperiment &exp, double mz_threshold) | MRMDecoy | |
dlg_ | ProgressLogger | mutableprotected |
end_ | ProgressLogger | mutableprotected |
endProgress() const | ProgressLogger | |
find_all_tryptic(std::string sequence) | MRMDecoy | |
generateDecoys(OpenMS::TargetedExperiment &exp, OpenMS::TargetedExperiment &dec, String method, String decoy_tag, double identity_threshold, int max_attempts, double mz_threshold, bool theoretical, double mz_shift, bool exclude_similar, double similarity_threshold, bool remove_CNterm_mods, double precursor_mass_shift) | MRMDecoy | |
getDecoyIon(String ionid, std::map< String, std::map< String, DoubleReal > > &decoy_ionseries) | MRMDecoy | |
getIonSeries(AASequence sequence, int precursor_charge, int max_isotopes=2) | MRMDecoy | |
getLogType() const | ProgressLogger | |
getTargetIon(double ProductMZ, double mz_threshold, std::map< String, std::map< String, double > > target_ionseries) | MRMDecoy | |
GUI enum value | ProgressLogger | |
has_CNterminal_mods(const OpenMS::TargetedExperiment::Peptide &peptide) | MRMDecoy | |
IonSeries typedef | MRMDecoy | |
IonSeriesMapType typedef | MRMDecoy | |
last_invoke_ | ProgressLogger | mutableprotected |
LogType enum name | ProgressLogger | |
MRMDecoy() | MRMDecoy | inline |
NONE enum value | ProgressLogger | |
PeptideTransitionMapType typedef | MRMDecoy | |
PeptideVectorType typedef | MRMDecoy | |
ProgressLogger() | ProgressLogger | |
ProteinVectorType typedef | MRMDecoy | |
pseudoreversePeptide(OpenMS::TargetedExperiment::Peptide peptide) | MRMDecoy | |
recursion_depth_ | ProgressLogger | protectedstatic |
restrictTransitions(OpenMS::TargetedExperiment &exp, int min_transitions, int max_transitions) | MRMDecoy | |
reversePeptide(OpenMS::TargetedExperiment::Peptide peptide) | MRMDecoy | |
setLogType(LogType type) const | ProgressLogger | |
setProgress(SignedSize value) const | ProgressLogger | |
shufflePeptide(OpenMS::TargetedExperiment::Peptide peptide, double identity_threshold, int seed=-1, int max_attempts=10) | MRMDecoy | |
startProgress(SignedSize begin, SignedSize end, const String &label) const | ProgressLogger | |
stop_watch_ | ProgressLogger | mutableprotected |
TransitionVectorType typedef | MRMDecoy | |
type_ | ProgressLogger | mutableprotected |
value_ | ProgressLogger | mutableprotected |
~ProgressLogger() | ProgressLogger | |