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RawMSSignalSimulation Member List

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

add1DSignal_(Feature &feature, SimTypes::MSSimExperiment &experiment, SimTypes::MSSimExperiment &experiment_ct)RawMSSignalSimulationprotected
add2DSignal_(Feature &feature, SimTypes::MSSimExperiment &experiment, SimTypes::MSSimExperiment &experiment_ct)RawMSSignalSimulationprotected
addBaseLine_(SimTypes::MSSimExperiment &experiment, SimTypes::SimCoordinateType minimal_mz_measurement_limit)RawMSSignalSimulationprotected
addDetectorNoise_(SimTypes::MSSimExperiment &experiment)RawMSSignalSimulationprotected
addShotNoise_(SimTypes::MSSimExperiment &experiment, SimTypes::SimCoordinateType minimal_mz_measurement_limit, SimTypes::SimCoordinateType maximal_mz_measurement_limit)RawMSSignalSimulationprotected
addWhiteNoise_(SimTypes::MSSimExperiment &experiment)RawMSSignalSimulationprotected
check_defaults_DefaultParamHandlerprotected
chooseElutionProfile_(EGHModel *const elutionmodel, Feature &feature, const double scale, const double rt_sampling_rate, const SimTypes::MSSimExperiment &experiment)RawMSSignalSimulationprotected
CMD enum valueProgressLogger
compressSignals_(SimTypes::MSSimExperiment &experiment)RawMSSignalSimulationprotected
contaminants_RawMSSignalSimulationprotected
contaminants_loaded_RawMSSignalSimulationprotected
createContaminants_(SimTypes::FeatureMapSim &contaminants, SimTypes::MSSimExperiment &exp, SimTypes::MSSimExperiment &exp_ct)RawMSSignalSimulationprotected
current_logger_ProgressLoggermutableprotected
DefaultParamHandler(const String &name)DefaultParamHandler
DefaultParamHandler(const DefaultParamHandler &rhs)DefaultParamHandler
DefaultParamHandler()DefaultParamHandlerprivate
defaults_DefaultParamHandlerprotected
defaultsToParam_()DefaultParamHandlerprotected
endProgress() constProgressLogger
error_name_DefaultParamHandlerprotected
generateRawSignals(SimTypes::FeatureMapSim &features, SimTypes::MSSimExperiment &experiment, SimTypes::MSSimExperiment &experiment_ct, SimTypes::FeatureMapSim &contaminants)RawMSSignalSimulation
getDefaults() constDefaultParamHandler
getFeatureScaledIntensity_(const SimTypes::SimIntensityType feature_intensity, const SimTypes::SimIntensityType natural_scaling_factor)RawMSSignalSimulationprotected
getLogType() constProgressLogger
getName() constDefaultParamHandler
getParameters() constDefaultParamHandler
getPeakWidth_(const double mz, const bool is_gaussian) constRawMSSignalSimulationprotected
getResolution_(const double query_mz, const double resolution, const RESOLUTIONMODEL model) constRawMSSignalSimulationprotected
getSamplingGrid_(std::vector< SimTypes::SimCoordinateType > &grid, const SimTypes::SimCoordinateType mz_min, const SimTypes::SimCoordinateType mz_max, const Int step_Da)RawMSSignalSimulationprotected
getSubsections() constDefaultParamHandler
grid_RawMSSignalSimulationprotected
GUI enum valueProgressLogger
IM_ALL enum valueRawMSSignalSimulationprotected
IM_ESI enum valueRawMSSignalSimulationprotected
IM_MALDI enum valueRawMSSignalSimulationprotected
intensity_scale_RawMSSignalSimulationprotected
intensity_scale_stddev_RawMSSignalSimulationprotected
IONIZATIONMETHOD enum nameRawMSSignalSimulationprotected
last_invoke_ProgressLoggermutableprotected
loadContaminants()RawMSSignalSimulation
LogType enum nameProgressLogger
logTypeToFactoryName_(LogType type)ProgressLoggerprotectedstatic
mz_error_mean_RawMSSignalSimulationprotected
mz_error_stddev_RawMSSignalSimulationprotected
nextProgress() constProgressLogger
NONE enum valueProgressLogger
operator=(const RawMSSignalSimulation &source)RawMSSignalSimulation
OpenMS::DefaultParamHandler::operator=(const DefaultParamHandler &rhs)DefaultParamHandlervirtual
OpenMS::ProgressLogger::operator=(const ProgressLogger &other)ProgressLogger
operator==(const DefaultParamHandler &rhs) constDefaultParamHandlervirtual
param_DefaultParamHandlerprotected
PROFILESHAPE enum nameRawMSSignalSimulationprotected
ProgressLogger()ProgressLogger
ProgressLogger(const ProgressLogger &other)ProgressLogger
RawMSSignalSimulation()RawMSSignalSimulation
RawMSSignalSimulation(SimTypes::MutableSimRandomNumberGeneratorPtr rng)RawMSSignalSimulationexplicit
RawMSSignalSimulation(const RawMSSignalSimulation &source)RawMSSignalSimulation
recursion_depth_ProgressLoggerprotectedstatic
res_base_RawMSSignalSimulationprotected
RES_CONSTANT enum valueRawMSSignalSimulationprotected
RES_LINEAR enum valueRawMSSignalSimulationprotected
res_model_RawMSSignalSimulationprotected
RES_SQRT enum valueRawMSSignalSimulationprotected
RESOLUTIONMODEL enum nameRawMSSignalSimulationprotected
rnd_gen_RawMSSignalSimulationprotected
RT_GAUSSIAN enum valueRawMSSignalSimulationprotected
RT_RECTANGULAR enum valueRawMSSignalSimulationprotected
samplePeptideModel1D_(const IsotopeModel &iso, const SimTypes::SimCoordinateType mz_start, const SimTypes::SimCoordinateType mz_end, SimTypes::MSSimExperiment &experiment, SimTypes::MSSimExperiment &experiment_ct, Feature &activeFeature)RawMSSignalSimulationprotected
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)RawMSSignalSimulationprotected
sampling_points_per_FWHM_RawMSSignalSimulationprotected
setDefaultParams_()RawMSSignalSimulationprotected
setLogType(LogType type) constProgressLogger
setName(const String &name)DefaultParamHandler
setParameters(const Param &param)DefaultParamHandler
setProgress(SignedSize value) constProgressLogger
startProgress(SignedSize begin, SignedSize end, const String &label) constProgressLogger
subsections_DefaultParamHandlerprotected
THREADED_RANDOM_NUMBER_POOL_SIZE_RawMSSignalSimulationprotectedstatic
threaded_random_numbers_RawMSSignalSimulationprotected
threaded_random_numbers_index_RawMSSignalSimulationprotected
type_ProgressLoggermutableprotected
updateMembers_() overrideRawMSSignalSimulationprotectedvirtual
warn_empty_defaults_DefaultParamHandlerprotected
~DefaultParamHandler()DefaultParamHandlervirtual
~ProgressLogger()ProgressLogger
~RawMSSignalSimulation() overrideRawMSSignalSimulation
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