XFDRAlgorithm Member List

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

arg_binsize_	XFDRAlgorithm	private
arg_maxborder_	XFDRAlgorithm	private
arg_minborder_	XFDRAlgorithm	private
arg_mindeltas_	XFDRAlgorithm	private
arg_minionsmatched_	XFDRAlgorithm	private
arg_minscore_	XFDRAlgorithm	private
arg_no_qvalues_	XFDRAlgorithm	private
arg_uniquex_	XFDRAlgorithm	private
assignTypes_(PeptideHit &pep_id, StringList &types)	XFDRAlgorithm	privatestatic
calc_qfdr_(const std::vector< double > &fdr, std::vector< double > &qfdr)	XFDRAlgorithm	privatestatic
check_defaults_	DefaultParamHandler	protected
CMD enum value	ProgressLogger
cross_link_classes_	XFDRAlgorithm	private
crosslink_class_decoys_	XFDRAlgorithm	privatestatic
crosslink_class_fulldecoysinterlinks_	XFDRAlgorithm	privatestatic
crosslink_class_fulldecoysintralinks_	XFDRAlgorithm	privatestatic
crosslink_class_hybriddecoysinterlinks_	XFDRAlgorithm	privatestatic
crosslink_class_hybriddecoysintralinks_	XFDRAlgorithm	privatestatic
crosslink_class_interdecoys_	XFDRAlgorithm	privatestatic
crosslink_class_interlinks_	XFDRAlgorithm	privatestatic
crosslink_class_intradecoys_	XFDRAlgorithm	privatestatic
crosslink_class_intralinks_	XFDRAlgorithm	privatestatic
crosslink_class_monodecoys_	XFDRAlgorithm	privatestatic
crosslink_class_monolinks_	XFDRAlgorithm	privatestatic
crosslink_class_targets_	XFDRAlgorithm	privatestatic
current_logger_	ProgressLogger	mutableprotected
decoy_string_	XFDRAlgorithm	private
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
EXECUTION_OK enum value	XFDRAlgorithm
ExitCodes enum name	XFDRAlgorithm
fdr_xprophet_(std::map< String, Math::Histogram<> > &cum_histograms, const String &targetclass, const String &decoyclass, const String &fulldecoyclass, std::vector< double > &fdr, bool mono) const	XFDRAlgorithm	private
findTopUniqueHits_(std::vector< PeptideIdentification > &peptide_ids)	XFDRAlgorithm	private
getDefaults() const	DefaultParamHandler
getId_(const PeptideHit &ph) const	XFDRAlgorithm	private
getLogType() const	ProgressLogger
getMinIonsMatched_(const PeptideHit &ph)	XFDRAlgorithm	inlineprivatestatic
getName() const	DefaultParamHandler
getParameters() const	DefaultParamHandler
getSubsections() const	DefaultParamHandler
GUI enum value	ProgressLogger
ILLEGAL_PARAMETERS enum value	XFDRAlgorithm
initDataStructures_(std::vector< PeptideIdentification > &peptide_ids, ProteinIdentification &protein_id)	XFDRAlgorithm	private
isSameProtein_(String prot1, String prot2, const String &decoy_string)	XFDRAlgorithm	inlineprivatestatic
last_invoke_	ProgressLogger	mutableprotected
LogType enum name	ProgressLogger
logTypeToFactoryName_(LogType type)	ProgressLogger	protectedstatic
max_score_	XFDRAlgorithm	private
min_score_	XFDRAlgorithm	private
nextProgress() const	ProgressLogger
NONE enum value	ProgressLogger
OpenMS::operator=(const DefaultParamHandler &rhs)	DefaultParamHandler
OpenMS::ProgressLogger::operator=(const ProgressLogger &other)	ProgressLogger
operator==(const DefaultParamHandler &rhs) const	DefaultParamHandler	virtual
param_	DefaultParamHandler	protected
param_binsize_	XFDRAlgorithm	privatestatic
param_decoy_string_	XFDRAlgorithm	privatestatic
param_maxborder_	XFDRAlgorithm	privatestatic
param_minborder_	XFDRAlgorithm	privatestatic
param_mindeltas_	XFDRAlgorithm	privatestatic
param_minionsmatched_	XFDRAlgorithm	privatestatic
param_minscore_	XFDRAlgorithm	privatestatic
param_no_qvalues_	XFDRAlgorithm	privatestatic
param_uniquexl_	XFDRAlgorithm	privatestatic
ProgressLogger()	ProgressLogger
ProgressLogger(const ProgressLogger &other)	ProgressLogger
recursion_depth_	ProgressLogger	protectedstatic
run(std::vector< PeptideIdentification > &peptide_ids, ProteinIdentification &protein_id)	XFDRAlgorithm
setInterProtein_(PeptideHit &ph, const bool value)	XFDRAlgorithm	inlineprivatestatic
setIntraProtein_(PeptideHit &ph, const bool value)	XFDRAlgorithm	inlineprivatestatic
setLogType(LogType type) const	ProgressLogger
setName(const String &name)	DefaultParamHandler
setParameters(const Param &param)	DefaultParamHandler
setProgress(SignedSize value) const	ProgressLogger
startProgress(SignedSize begin, SignedSize end, const String &label) const	ProgressLogger
subsections_	DefaultParamHandler	protected
type_	ProgressLogger	mutableprotected
UNEXPECTED_RESULT enum value	XFDRAlgorithm
unique_id_scores_	XFDRAlgorithm	private
unique_ids_	XFDRAlgorithm	private
updateMembers_() override	XFDRAlgorithm	privatevirtual
validateClassArguments() const	XFDRAlgorithm
warn_empty_defaults_	DefaultParamHandler	protected
writeArgumentsLog_() const	XFDRAlgorithm	private
writeParametersToMetaValues(const Param &write_this, MetaInfoInterface &write_here, const String &key_prefix="")	DefaultParamHandler	static
XFDRAlgorithm()	XFDRAlgorithm
~DefaultParamHandler()	DefaultParamHandler	virtual
~ProgressLogger()	ProgressLogger	virtual
~XFDRAlgorithm() override	XFDRAlgorithm