averagine_similarity_ | MultiplexFiltering | protected |
averagine_similarity_scaling_ | MultiplexFiltering | protected |
averagine_type_ | MultiplexFiltering | protected |
averagineSimilarityFilter_(const MultiplexIsotopicPeakPattern &pattern, const std::vector< double > &intensities_actual, int peaks_found_in_all_peptides_spline, double mz) const | MultiplexFiltering | protected |
blacklist_ | MultiplexFiltering | protected |
blacklistPeaks_(const MultiplexIsotopicPeakPattern &pattern, int spectrum, const std::vector< int > &mz_shifts_actual_indices, int peaks_found_in_all_peptides_spline) | MultiplexFiltering | protected |
CMD enum value | ProgressLogger | |
current_logger_ | ProgressLogger | mutableprotected |
endProgress() const | ProgressLogger | |
exp_picked_ | MultiplexFiltering | protected |
getAveragineSimilarity_(const std::vector< double > &pattern, double m) const | MultiplexFiltering | protected |
getLogType() const | ProgressLogger | |
getPatternSimilarity_(const std::vector< double > &pattern1, const std::vector< double > &pattern2) const | MultiplexFiltering | protected |
getPeakIndex_(const std::vector< double > &peak_position, int start, double mz, double scaling) const | MultiplexFiltering | protected |
GUI enum value | ProgressLogger | |
intensity_cutoff_ | MultiplexFiltering | protected |
last_invoke_ | ProgressLogger | mutableprotected |
LogType enum name | ProgressLogger | |
logTypeToFactoryName_(LogType type) | ProgressLogger | protectedstatic |
missing_peaks_ | MultiplexFiltering | protected |
monoIsotopicPeakIntensityFilter_(const MultiplexIsotopicPeakPattern &pattern, int spectrum_index, const std::vector< int > &mz_shifts_actual_indices) const | MultiplexFiltering | protected |
MultiplexFiltering(const PeakMap &exp_picked, const std::vector< MultiplexIsotopicPeakPattern > patterns, int peaks_per_peptide_min, int peaks_per_peptide_max, bool missing_peaks, double intensity_cutoff, double mz_tolerance, bool mz_tolerance_unit, double peptide_similarity, double averagine_similarity, double averagine_similarity_scaling, String averagine_type="peptide") | MultiplexFiltering | |
mz_tolerance_ | MultiplexFiltering | protected |
mz_tolerance_unit_ | MultiplexFiltering | protected |
NONE enum value | ProgressLogger | |
operator=(const ProgressLogger &other) | ProgressLogger | |
patterns_ | MultiplexFiltering | protected |
peaks_per_peptide_max_ | MultiplexFiltering | protected |
peaks_per_peptide_min_ | MultiplexFiltering | protected |
peptide_similarity_ | MultiplexFiltering | protected |
peptideSimilarityFilter_(const MultiplexIsotopicPeakPattern &pattern, const std::vector< double > &intensities_actual, int peaks_found_in_all_peptides_spline) const | MultiplexFiltering | protected |
positionsAndBlacklistFilter_(const MultiplexIsotopicPeakPattern &pattern, int spectrum, const std::vector< double > &peak_position, int peak, std::vector< double > &mz_shifts_actual, std::vector< int > &mz_shifts_actual_indices) const | MultiplexFiltering | protected |
ProgressLogger() | ProgressLogger | |
ProgressLogger(const ProgressLogger &other) | ProgressLogger | |
recursion_depth_ | ProgressLogger | protectedstatic |
registry_ | MultiplexFiltering | protected |
setLogType(LogType type) const | ProgressLogger | |
setProgress(SignedSize value) const | ProgressLogger | |
startProgress(SignedSize begin, SignedSize end, const String &label) const | ProgressLogger | |
type_ | ProgressLogger | mutableprotected |
zerothPeakFilter_(const MultiplexIsotopicPeakPattern &pattern, const std::vector< double > &intensities_actual) const | MultiplexFiltering | protected |
~ProgressLogger() | ProgressLogger | |