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PrecursorIonSelection Member List

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

check_defaults_DefaultParamHandlerprotected
checkForRequiredUserParams_(FeatureMap<> &features)PrecursorIonSelectionprivate
convertPeptideIdScores_(std::vector< PeptideIdentification > &pep_ids)PrecursorIonSelectionprivate
DefaultParamHandler(const String &name)DefaultParamHandler
DefaultParamHandler(const DefaultParamHandler &rhs)DefaultParamHandler
defaults_DefaultParamHandlerprotected
defaultsToParam_()DefaultParamHandlerprotected
DEX enum valuePrecursorIonSelection
DOWNSHIFT enum valuePrecursorIonSelection
error_name_DefaultParamHandlerprotected
filterPeptideIds_(std::vector< PeptideIdentification > &pep_ids)PrecursorIonSelectionprivate
filterProtIds_(std::vector< ProteinIdentification > &prot_ids)PrecursorIonSelectionprivate
fraction_counter_PrecursorIonSelectionprivate
getDefaults() const DefaultParamHandler
getLPSolver()PrecursorIonSelectioninline
getMaxScore() const PrecursorIonSelection
getName() const DefaultParamHandler
getNextPrecursors(FeatureMap<> &features, FeatureMap<> &next_features, UInt number)PrecursorIonSelection
getNextPrecursors(std::vector< Int > &solution_indices, std::vector< PSLPFormulation::IndexTriple > &variable_indices, std::set< Int > &measured_variables, FeatureMap<> &features, FeatureMap<> &new_features, UInt step_size, PSLPFormulation &ilp)PrecursorIonSelection
getNextPrecursorsSeq(FeatureMap<> &features, FeatureMap<> &next_features, UInt number, DoubleReal &rt)PrecursorIonSelection
getParameters() const DefaultParamHandler
getPeptideProteinCounter()PrecursorIonSelectioninline
getSubsections() const DefaultParamHandler
ILP_IPS enum valuePrecursorIonSelection
IPS enum valuePrecursorIonSelection
max_iteration_PrecursorIonSelectionprivate
max_score_PrecursorIonSelectionprivate
min_pep_ids_PrecursorIonSelectionprivate
mz_tolerance_PrecursorIonSelectionprivate
mz_tolerance_unit_PrecursorIonSelectionprivate
operator=(const DefaultParamHandler &rhs)DefaultParamHandlervirtual
operator==(const DefaultParamHandler &rhs) const DefaultParamHandlervirtual
param_DefaultParamHandlerprotected
PrecursorIonSelection()PrecursorIonSelection
PrecursorIonSelection(const PrecursorIonSelection &source)PrecursorIonSelection
prot_id_counter_PrecursorIonSelectionprivate
rescore(FeatureMap<> &features, std::vector< PeptideIdentification > &new_pep_ids, std::vector< ProteinIdentification > &prot_ids, PrecursorIonSelectionPreprocessing &preprocessed_db, bool check_meta_values=true)PrecursorIonSelection
rescore_(FeatureMap<> &features, std::vector< PeptideIdentification > &new_pep_ids, PrecursorIonSelectionPreprocessing &preprocessed_db, PSProteinInference &protein_inference)PrecursorIonSelectionprivate
reset()PrecursorIonSelection
setLPSolver(LPWrapper::SOLVER solver)PrecursorIonSelectioninline
setMaxScore(const DoubleReal &max_score)PrecursorIonSelection
setName(const String &name)DefaultParamHandler
setParameters(const Param &param)DefaultParamHandler
shiftDown_(FeatureMap<> &features, PrecursorIonSelectionPreprocessing &preprocessed_db, String protein_acc)PrecursorIonSelectionprivate
shiftUp_(FeatureMap<> &features, PrecursorIonSelectionPreprocessing &preprocessed_db, String protein_acc)PrecursorIonSelectionprivate
simulateILPBasedIPSRun_(FeatureMap<> &features, MSExperiment<> &experiment, std::vector< PeptideIdentification > &pep_ids, std::vector< ProteinIdentification > &prot_ids, PrecursorIonSelectionPreprocessing &preprocessed_db, String output_path, String precursor_path="")PrecursorIonSelectionprivate
simulateRun(FeatureMap<> &features, std::vector< PeptideIdentification > &pep_ids, std::vector< ProteinIdentification > &prot_ids, PrecursorIonSelectionPreprocessing &preprocessed_db, String path, MSExperiment<> &experiment, String precursor_path="")PrecursorIonSelection
simulateRun_(FeatureMap<> &features, std::vector< PeptideIdentification > &pep_ids, std::vector< ProteinIdentification > &prot_ids, PrecursorIonSelectionPreprocessing &preprocessed_db, String path, String precursor_path="")PrecursorIonSelectionprivate
solver_PrecursorIonSelectionprivate
sortByTotalScore(FeatureMap<> &features)PrecursorIonSelectioninline
SPS enum valuePrecursorIonSelection
subsections_DefaultParamHandlerprotected
Type enum namePrecursorIonSelection
type_PrecursorIonSelectionprivate
updateMembers_()PrecursorIonSelectionprivatevirtual
UPSHIFT enum valuePrecursorIonSelection
warn_empty_defaults_DefaultParamHandlerprotected
x_variable_number_PrecursorIonSelectionprivate
~DefaultParamHandler()DefaultParamHandlervirtual
~PrecursorIonSelection()PrecursorIonSelection

OpenMS / TOPP release 1.11.1 Documentation generated on Thu Nov 14 2013 11:19:27 using doxygen 1.8.5