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OpenMS
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This is the complete list of members for MassTraceDetection, including all inherited members.
| check_defaults_ | DefaultParamHandler | protected |
| chrom_peak_snr_ | MassTraceDetection | private |
| CMD enum value | ProgressLogger | |
| current_logger_ | ProgressLogger | mutableprotected |
| DefaultParamHandler(const String &name) | DefaultParamHandler | |
| DefaultParamHandler(const DefaultParamHandler &rhs) | DefaultParamHandler | |
| DefaultParamHandler() | DefaultParamHandler | private |
| defaults_ | DefaultParamHandler | protected |
| defaultsToParam_() | DefaultParamHandler | protected |
| endProgress(UInt64 bytes_processed=0) const | ProgressLogger | |
| error_name_ | DefaultParamHandler | protected |
| findBestPeak_(const MSSpectrum &spectrum, double centroid_mz, double ftl_sd, double centroid_im=-1.0) const | MassTraceDetection | private |
| fwhm_meta_idx_ | MassTraceDetection | mutableprivate |
| getDefaults() const | DefaultParamHandler | |
| getIMIndices_(const PeakMap &spectra, int &fwhm_meta_idx, bool &has_fwhm_mz, int &im_idx, bool &has_centroid_im, int &im_fwhm_idx, bool &has_fwhm_im) const | MassTraceDetection | private |
| getLogType() const | ProgressLogger | |
| getName() const | DefaultParamHandler | |
| getParameters() const | DefaultParamHandler | |
| getSubsections() const | DefaultParamHandler | |
| GUI enum value | ProgressLogger | |
| has_centroid_im_ | MassTraceDetection | private |
| has_fwhm_im_ | MassTraceDetection | private |
| has_fwhm_mz_ | MassTraceDetection | private |
| hasCentroidIm() const | MassTraceDetection | inline |
| hasFwhmIm() const | MassTraceDetection | inline |
| hasFwhmMz() const | MassTraceDetection | inline |
| im_fwhm_idx_ | MassTraceDetection | mutableprivate |
| ion_mobility_idx_ | MassTraceDetection | mutableprivate |
| ion_mobility_tolerance_ | MassTraceDetection | private |
| isPeakAcceptable_(const PeakCandidate &candidate, double centroid_mz, double ftl_sd, double centroid_im, Size spectrum_idx, const std::vector< Size > &spec_offsets, const boost::dynamic_bitset<> &peak_visited) const | MassTraceDetection | private |
| isTraceValid_(const std::list< PeakType > &trace, Size total_scans_visited, Size consecutive_missed_down, Size consecutive_missed_up) const | MassTraceDetection | private |
| last_invoke_ | ProgressLogger | mutableprotected |
| LogType enum name | ProgressLogger | |
| mass_error_da_ | MassTraceDetection | private |
| mass_error_ppm_ | MassTraceDetection | private |
| MassTraceDetection() | MassTraceDetection | |
| max_trace_length_ | MassTraceDetection | private |
| min_sample_rate_ | MassTraceDetection | private |
| min_trace_length_ | MassTraceDetection | private |
| nextProgress() const | ProgressLogger | |
| noise_threshold_int_ | MassTraceDetection | private |
| NONE enum value | ProgressLogger | |
| OpenMS::operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | |
| OpenMS::ProgressLogger::operator=(const ProgressLogger &other) | ProgressLogger | |
| operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | virtual |
| OUTLIER enum value | MassTraceDetection | |
| param_ | DefaultParamHandler | protected |
| processPeak_(const PeakCandidate &candidate, const MSSpectrum &spectrum, std::list< PeakType > ¤t_trace, std::vector< std::pair< Size, Size >> &gathered_idx, std::vector< double > &fwhms_mz, std::vector< double > &fwhms_im, double ¢roid_mz, double ¢roid_im, double &prev_counter, double &prev_denom, double &prev_counter_im, double &prev_denom_im, double &ftl_sd, double &intensity_so_far, Size spectrum_idx, bool is_upward_extension) | MassTraceDetection | private |
| ProgressLogger() | ProgressLogger | |
| ProgressLogger(const ProgressLogger &other) | ProgressLogger | |
| quant_method_ | MassTraceDetection | private |
| recursion_depth_ | ProgressLogger | protectedstatic |
| reestimate_mt_sd_ | MassTraceDetection | private |
| run(const PeakMap &, std::vector< MassTrace > &, const Size max_traces=0) | MassTraceDetection | |
| run(PeakMap::ConstAreaIterator &begin, PeakMap::ConstAreaIterator &end, std::vector< MassTrace > &found_masstraces) | MassTraceDetection | |
| run_(const std::vector< Apex > &chrom_apices, const Size peak_count, const PeakMap &work_exp, const std::vector< Size > &spec_offsets, std::vector< MassTrace > &found_masstraces, const Size max_traces=0) | MassTraceDetection | private |
| SAMPLE_RATE enum value | MassTraceDetection | |
| setLogger(ProgressLoggerImpl *logger) | ProgressLogger | |
| setLogType(LogType type) const | ProgressLogger | |
| setName(const String &name) | DefaultParamHandler | |
| setParameters(const Param ¶m) | DefaultParamHandler | |
| setProgress(SignedSize value) const | ProgressLogger | |
| startProgress(SignedSize begin, SignedSize end, const String &label) const | ProgressLogger | |
| subsections_ | DefaultParamHandler | protected |
| trace_termination_criterion_ | MassTraceDetection | private |
| trace_termination_outliers_ | MassTraceDetection | private |
| TraceTerminationCriterion enum name | MassTraceDetection | |
| type_ | ProgressLogger | mutableprotected |
| updateIterativeWeightedMean_(const double &added_value, const double &added_intensity, double ¢roid_value, double &prev_counter, double &prev_denom) | MassTraceDetection | protectedstatic |
| updateMembers_() override | MassTraceDetection | protectedvirtual |
| warn_empty_defaults_ | DefaultParamHandler | protected |
| writeParametersToMetaValues(const Param &write_this, MetaInfoInterface &write_here, const String &key_prefix="") | DefaultParamHandler | static |
| ~DefaultParamHandler() | DefaultParamHandler | virtual |
| ~MassTraceDetection() override | MassTraceDetection | |
| ~ProgressLogger() | ProgressLogger | virtual |
1.9.1 
