OpenMS
PosteriorErrorProbabilityModel Member List

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

check_defaults_DefaultParamHandlerprotected
computeLLAndIncorrectPosteriorsFromLogDensities(const std::vector< double > &incorrect_log_density, const std::vector< double > &correct_log_density, std::vector< double > &incorrect_posterior) constPosteriorErrorProbabilityModel
computeLogLikelihood(const std::vector< double > &incorrect_density, const std::vector< double > &correct_density) constPosteriorErrorProbabilityModel
computeProbability(double score) constPosteriorErrorProbabilityModel
correctly_assigned_fit_param_PosteriorErrorProbabilityModelprivate
DefaultParamHandler(const String &name)DefaultParamHandler
DefaultParamHandler(const DefaultParamHandler &rhs)DefaultParamHandler
DefaultParamHandler()DefaultParamHandlerprivate
defaults_DefaultParamHandlerprotected
defaultsToParam_()DefaultParamHandlerprotected
error_name_DefaultParamHandlerprotected
extractAndTransformScores(const std::vector< ProteinIdentification > &protein_ids, const std::vector< PeptideIdentification > &peptide_ids, const bool split_charge, const bool top_hits_only, const bool target_decoy_available, const double fdr_for_targets_smaller)PosteriorErrorProbabilityModelstatic
fillDensities(const std::vector< double > &x_scores, std::vector< double > &incorrect_density, std::vector< double > &correct_density)PosteriorErrorProbabilityModel
fillLogDensities(const std::vector< double > &x_scores, std::vector< double > &incorrect_density, std::vector< double > &correct_density)PosteriorErrorProbabilityModel
fillLogDensitiesGumbel(const std::vector< double > &x_scores, std::vector< double > &incorrect_density, std::vector< double > &correct_density)PosteriorErrorProbabilityModel
fit(std::vector< double > &search_engine_scores, const String &outlier_handling)PosteriorErrorProbabilityModel
fit(std::vector< double > &search_engine_scores, std::vector< double > &probabilities, const String &outlier_handling)PosteriorErrorProbabilityModel
fitGumbelGauss(std::vector< double > &search_engine_scores, const String &outlier_handling)PosteriorErrorProbabilityModel
getBothGnuplotFormula(const GaussFitter::GaussFitResult &incorrect, const GaussFitter::GaussFitResult &correct) constPosteriorErrorProbabilityModel
getCorrectlyAssignedFitResult() constPosteriorErrorProbabilityModelinline
getDefaults() constDefaultParamHandler
getGaussGnuplotFormula(const GaussFitter::GaussFitResult &params) constPosteriorErrorProbabilityModel
getGumbel_(double x, const GaussFitter::GaussFitResult &params)PosteriorErrorProbabilityModelinlinestatic
getGumbelGnuplotFormula(const GaussFitter::GaussFitResult &params) constPosteriorErrorProbabilityModel
getIncorrectlyAssignedFitResult() constPosteriorErrorProbabilityModelinline
getIncorrectlyAssignedGumbelFitResult() constPosteriorErrorProbabilityModelinline
getName() constDefaultParamHandler
getNegativeGnuplotFormula_PosteriorErrorProbabilityModelprivate
getNegativePrior() constPosteriorErrorProbabilityModelinline
getParameters() constDefaultParamHandler
getPositiveGnuplotFormula_PosteriorErrorProbabilityModelprivate
getScore_(const std::vector< String > &requested_score_types, const PeptideHit &hit, const String &actual_score_type)PosteriorErrorProbabilityModelprivatestatic
getSmallestScore() constPosteriorErrorProbabilityModelinline
getSubsections() constDefaultParamHandler
incorrectly_assigned_fit_gumbel_param_PosteriorErrorProbabilityModelprivate
incorrectly_assigned_fit_param_PosteriorErrorProbabilityModelprivate
initPlots(std::vector< double > &x_scores)PosteriorErrorProbabilityModel
max_correctly_PosteriorErrorProbabilityModelprivate
max_incorrectly_PosteriorErrorProbabilityModelprivate
negative_prior_PosteriorErrorProbabilityModelprivate
operator=(const PosteriorErrorProbabilityModel &rhs)PosteriorErrorProbabilityModelprivate
OpenMS::DefaultParamHandler::operator=(const DefaultParamHandler &rhs)DefaultParamHandler
operator==(const DefaultParamHandler &rhs) constDefaultParamHandlervirtual
param_DefaultParamHandlerprotected
plotTargetDecoyEstimation(std::vector< double > &target, std::vector< double > &decoy)PosteriorErrorProbabilityModel
pos_neg_mean_weighted_posteriors(const std::vector< double > &x_scores, const std::vector< double > &incorrect_posteriors)PosteriorErrorProbabilityModel
pos_neg_sigma_weighted_posteriors(const std::vector< double > &x_scores, const std::vector< double > &incorrect_posteriors, const std::pair< double, double > &means)PosteriorErrorProbabilityModel
PosteriorErrorProbabilityModel()PosteriorErrorProbabilityModel
PosteriorErrorProbabilityModel(const PosteriorErrorProbabilityModel &rhs)PosteriorErrorProbabilityModelprivate
processOutliers_(std::vector< double > &x_scores, const String &outlier_handling) constPosteriorErrorProbabilityModelprivate
setName(const String &name)DefaultParamHandler
setParameters(const Param &param)DefaultParamHandler
smallest_score_PosteriorErrorProbabilityModelprivate
subsections_DefaultParamHandlerprotected
transformScore_(const String &engine, const PeptideHit &hit, const String &current_score_type)PosteriorErrorProbabilityModelprivatestatic
tryGnuplot(const String &gp_file)PosteriorErrorProbabilityModel
updateMembers_()DefaultParamHandlerprotectedvirtual
updateScores(const PosteriorErrorProbabilityModel &PEP_model, const String &search_engine, const Int charge, const bool prob_correct, const bool split_charge, std::vector< ProteinIdentification > &protein_ids, std::vector< PeptideIdentification > &peptide_ids, bool &unable_to_fit_data, bool &data_might_not_be_well_fit)PosteriorErrorProbabilityModelstatic
warn_empty_defaults_DefaultParamHandlerprotected
writeParametersToMetaValues(const Param &write_this, MetaInfoInterface &write_here, const String &key_prefix="")DefaultParamHandlerstatic
~DefaultParamHandler()DefaultParamHandlervirtual
~PosteriorErrorProbabilityModel() overridePosteriorErrorProbabilityModel