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OpenMS
2.7.0
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This is the complete list of members for RawMSSignalSimulation, including all inherited members.
| add1DSignal_(Feature &feature, SimTypes::MSSimExperiment &experiment, SimTypes::MSSimExperiment &experiment_ct) | RawMSSignalSimulation | protected |
| add2DSignal_(Feature &feature, SimTypes::MSSimExperiment &experiment, SimTypes::MSSimExperiment &experiment_ct) | RawMSSignalSimulation | protected |
| addBaseLine_(SimTypes::MSSimExperiment &experiment, SimTypes::SimCoordinateType minimal_mz_measurement_limit) | RawMSSignalSimulation | protected |
| addDetectorNoise_(SimTypes::MSSimExperiment &experiment) | RawMSSignalSimulation | protected |
| addShotNoise_(SimTypes::MSSimExperiment &experiment, SimTypes::SimCoordinateType minimal_mz_measurement_limit, SimTypes::SimCoordinateType maximal_mz_measurement_limit) | RawMSSignalSimulation | protected |
| addWhiteNoise_(SimTypes::MSSimExperiment &experiment) | RawMSSignalSimulation | protected |
| check_defaults_ | DefaultParamHandler | protected |
| chooseElutionProfile_(EGHModel *const elutionmodel, Feature &feature, const double scale, const double rt_sampling_rate, const SimTypes::MSSimExperiment &experiment) | RawMSSignalSimulation | protected |
| CMD enum value | ProgressLogger | |
| compressSignals_(SimTypes::MSSimExperiment &experiment) | RawMSSignalSimulation | protected |
| contaminants_ | RawMSSignalSimulation | protected |
| contaminants_loaded_ | RawMSSignalSimulation | protected |
| createContaminants_(SimTypes::FeatureMapSim &contaminants, SimTypes::MSSimExperiment &exp, SimTypes::MSSimExperiment &exp_ct) | RawMSSignalSimulation | protected |
| current_logger_ | ProgressLogger | mutableprotected |
| DefaultParamHandler(const String &name) | DefaultParamHandler | |
| DefaultParamHandler(const DefaultParamHandler &rhs) | DefaultParamHandler | |
| DefaultParamHandler() | DefaultParamHandler | private |
| defaults_ | DefaultParamHandler | protected |
| defaultsToParam_() | DefaultParamHandler | protected |
| endProgress() const | ProgressLogger | |
| error_name_ | DefaultParamHandler | protected |
| generateRawSignals(SimTypes::FeatureMapSim &features, SimTypes::MSSimExperiment &experiment, SimTypes::MSSimExperiment &experiment_ct, SimTypes::FeatureMapSim &contaminants) | RawMSSignalSimulation | |
| getDefaults() const | DefaultParamHandler | |
| getFeatureScaledIntensity_(const SimTypes::SimIntensityType feature_intensity, const SimTypes::SimIntensityType natural_scaling_factor) | RawMSSignalSimulation | protected |
| getLogType() const | ProgressLogger | |
| getName() const | DefaultParamHandler | |
| getParameters() const | DefaultParamHandler | |
| getPeakWidth_(const double mz, const bool is_gaussian) const | RawMSSignalSimulation | protected |
| getResolution_(const double query_mz, const double resolution, const RESOLUTIONMODEL model) const | RawMSSignalSimulation | protected |
| getSamplingGrid_(std::vector< SimTypes::SimCoordinateType > &grid, const SimTypes::SimCoordinateType mz_min, const SimTypes::SimCoordinateType mz_max, const Int step_Da) | RawMSSignalSimulation | protected |
| getSubsections() const | DefaultParamHandler | |
| grid_ | RawMSSignalSimulation | protected |
| GUI enum value | ProgressLogger | |
| IM_ALL enum value | RawMSSignalSimulation | protected |
| IM_ESI enum value | RawMSSignalSimulation | protected |
| IM_MALDI enum value | RawMSSignalSimulation | protected |
| intensity_scale_ | RawMSSignalSimulation | protected |
| intensity_scale_stddev_ | RawMSSignalSimulation | protected |
| IONIZATIONMETHOD enum name | RawMSSignalSimulation | protected |
| last_invoke_ | ProgressLogger | mutableprotected |
| loadContaminants() | RawMSSignalSimulation | |
| LogType enum name | ProgressLogger | |
| logTypeToFactoryName_(LogType type) | ProgressLogger | protectedstatic |
| mz_error_mean_ | RawMSSignalSimulation | protected |
| mz_error_stddev_ | RawMSSignalSimulation | protected |
| nextProgress() const | ProgressLogger | |
| NONE enum value | ProgressLogger | |
| operator=(const RawMSSignalSimulation &source) | RawMSSignalSimulation | |
| OpenMS::DefaultParamHandler::operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | virtual |
| OpenMS::ProgressLogger::operator=(const ProgressLogger &other) | ProgressLogger | |
| operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | virtual |
| param_ | DefaultParamHandler | protected |
| PROFILESHAPE enum name | RawMSSignalSimulation | protected |
| ProgressLogger() | ProgressLogger | |
| ProgressLogger(const ProgressLogger &other) | ProgressLogger | |
| RawMSSignalSimulation() | RawMSSignalSimulation | |
| RawMSSignalSimulation(SimTypes::MutableSimRandomNumberGeneratorPtr rng) | RawMSSignalSimulation | explicit |
| RawMSSignalSimulation(const RawMSSignalSimulation &source) | RawMSSignalSimulation | |
| recursion_depth_ | ProgressLogger | protectedstatic |
| res_base_ | RawMSSignalSimulation | protected |
| RES_CONSTANT enum value | RawMSSignalSimulation | protected |
| RES_LINEAR enum value | RawMSSignalSimulation | protected |
| res_model_ | RawMSSignalSimulation | protected |
| RES_SQRT enum value | RawMSSignalSimulation | protected |
| RESOLUTIONMODEL enum name | RawMSSignalSimulation | protected |
| rnd_gen_ | RawMSSignalSimulation | protected |
| RT_GAUSSIAN enum value | RawMSSignalSimulation | protected |
| RT_RECTANGULAR enum value | RawMSSignalSimulation | protected |
| samplePeptideModel1D_(const IsotopeModel &iso, const SimTypes::SimCoordinateType mz_start, const SimTypes::SimCoordinateType mz_end, SimTypes::MSSimExperiment &experiment, SimTypes::MSSimExperiment &experiment_ct, Feature &activeFeature) | RawMSSignalSimulation | protected |
| samplePeptideModel2D_(const ProductModel< 2 > &pm, const SimTypes::SimCoordinateType mz_start, const SimTypes::SimCoordinateType mz_end, SimTypes::SimCoordinateType rt_start, SimTypes::SimCoordinateType rt_end, SimTypes::MSSimExperiment &experiment, SimTypes::MSSimExperiment &experiment_ct, Feature &activeFeature) | RawMSSignalSimulation | protected |
| sampling_points_per_FWHM_ | RawMSSignalSimulation | protected |
| setDefaultParams_() | RawMSSignalSimulation | protected |
| 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 |
| THREADED_RANDOM_NUMBER_POOL_SIZE_ | RawMSSignalSimulation | protectedstatic |
| threaded_random_numbers_ | RawMSSignalSimulation | protected |
| threaded_random_numbers_index_ | RawMSSignalSimulation | protected |
| type_ | ProgressLogger | mutableprotected |
| updateMembers_() override | RawMSSignalSimulation | protectedvirtual |
| warn_empty_defaults_ | DefaultParamHandler | protected |
| writeParametersToMetaValues(const Param &write_this, MetaInfoInterface &write_here, const String &prefix="") | DefaultParamHandler | static |
| ~DefaultParamHandler() | DefaultParamHandler | virtual |
| ~ProgressLogger() | ProgressLogger | virtual |
| ~RawMSSignalSimulation() override | RawMSSignalSimulation |
1.9.1
