| OpenMS 2.5.0

AScore Member List

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

AScore() | AScore |
base_match_probability_ | AScore | protected
calculatePermutationPeptideScores_(std::vector< PeakSpectrum > &th_spectra, const std::vector< PeakSpectrum > &windows_top10) const | AScore | protected
check_defaults_ | DefaultParamHandler | protected
compareMZ_(double mz1, double mz2) const | AScore | protected
compute(const PeptideHit &hit, PeakSpectrum &real_spectrum) | AScore |
computeBaseProbability_(double ppm_reference_mz) const | AScore | protected
computeCumulativeScore_(Size N, Size n, double p) const | AScore | protected
computePermutations_(const std::vector< Size > &sites, Int n_phosphorylation_events) const | AScore | protected
computeSiteDeterminingIons_(const std::vector< PeakSpectrum > &th_spectra, const ProbablePhosphoSites &candidates, std::vector< PeakSpectrum > &site_determining_ions) const | AScore | protected
createTheoreticalSpectra_(const std::vector< std::vector< Size >> &permutations, const AASequence &seq_without_phospho) const | AScore | protected
DefaultParamHandler(const String &name) | DefaultParamHandler |
DefaultParamHandler(const DefaultParamHandler &rhs) | DefaultParamHandler |
defaults_ | DefaultParamHandler | protected
defaultsToParam_() | DefaultParamHandler | protected
determineHighestScoringPermutations_(const std::vector< std::vector< double >> &peptide_site_scores, std::vector< ProbablePhosphoSites > &sites, const std::vector< std::vector< Size >> &permutations, std::multimap< double, Size > &ranking) const | AScore | protected
error_name_ | DefaultParamHandler | protected
fragment_mass_tolerance_ | AScore | protected
fragment_tolerance_ppm_ | AScore | protected
getDefaults() const | DefaultParamHandler |
getName() const | DefaultParamHandler |
getParameters() const | DefaultParamHandler |
getSites_(const AASequence &without_phospho) const | AScore | protected
getSpectrumDifference_(InputIterator1 first1, InputIterator1 last1, InputIterator2 first2, InputIterator2 last2, OutputIterator result) const | AScore | inline protected
getSubsections() const | DefaultParamHandler |
max_peptide_length_ | AScore | protected
max_permutations_ | AScore | protected
numberOfMatchedIons_(const PeakSpectrum &th, const PeakSpectrum &windows, Size depth) const | AScore | protected
numberOfPhosphoEvents_(const String &sequence) const | AScore | protected
operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | virtual
operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | virtual
param_ | DefaultParamHandler | protected
peakPickingPerWindowsInSpectrum_(PeakSpectrum &real_spectrum) const | AScore | protected
peptideScore_(const std::vector< double > &scores) const | AScore | protected
PScore | AScore | friend
rankWeightedPermutationPeptideScores_(const std::vector< std::vector< double >> &peptide_site_scores) const | AScore | protected
removePhosphositesFromSequence_(const String &sequence) const | AScore | protected
setName(const String &name) | DefaultParamHandler |
setParameters(const Param &param) | DefaultParamHandler |
subsections_ | DefaultParamHandler | protected
unambiguous_score_ | AScore | protected
updateMembers_() override | AScore | protected virtual
warn_empty_defaults_ | DefaultParamHandler | protected
~AScore() override | AScore |
~DefaultParamHandler() | DefaultParamHandler | virtual