PercolatorInfile Member List

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

buildFeatureMatrix(const PeptideIdentificationList &peptide_ids, const StringList &features, const std::string &enz, int min_charge, int max_charge, RescoreInput &input, std::vector< std::pair< size_t, size_t > > &rows)	PercolatorInfile	static
countEnzymatic_(const std::string &peptide, const std::string &enz)	PercolatorInfile	protectedstatic
getFeatureValue(const DataValue &value, const std::string &feature)	PercolatorInfile	static
getFileIdentifier(const PeptideIdentification &pid)	PercolatorInfile	static
getFileIdentifier(const PeptideIdentification &pid, UInt file_origin_index, UInt id_merge_index_index)	PercolatorInfile	static
getPinColumnNames(int min_charge, int max_charge)	PercolatorInfile	static
getScanIdentifier(const PeptideIdentification &pid, size_t index)	PercolatorInfile	static
getStandardFeatureSet(int min_charge, int max_charge)	PercolatorInfile	static
isEnz_(const char &n, const char &c, const std::string &enz)	PercolatorInfile	protectedstatic
load(const std::string &pin_file, bool higher_score_better, const std::string &score_name, const StringList &extra_scores, StringList &filenames, std::string decoy_prefix="", double threshold=0.01, bool SageAnnotation=false)	PercolatorInfile	static
LOOKUP_CALC_MASS enum value	PercolatorInfile	protected
LOOKUP_ISOTOPE_ERROR enum value	PercolatorInfile	protected
LOOKUP_ISOTOPE_ERROR_LEGACY enum value	PercolatorInfile	protected
PIN_ABSDM enum value	PercolatorInfile	protected
PIN_CALC_MASS enum value	PercolatorInfile	protected
PIN_CHARGE enum value	PercolatorInfile	protected
PIN_DELTAMASS enum value	PercolatorInfile	protected
PIN_DM enum value	PercolatorInfile	protected
PIN_ENZ_C enum value	PercolatorInfile	protected
PIN_ENZ_INT enum value	PercolatorInfile	protected
PIN_ENZ_N enum value	PercolatorInfile	protected
PIN_EXP_MASS enum value	PercolatorInfile	protected
PIN_LABEL enum value	PercolatorInfile	protected
PIN_MASS enum value	PercolatorInfile	protected
PIN_PEPLEN enum value	PercolatorInfile	protected
PIN_PEPTIDE enum value	PercolatorInfile	protected
PIN_PROTEINS enum value	PercolatorInfile	protected
PIN_RETENTIONTIME enum value	PercolatorInfile	protected
PIN_SCAN_NR enum value	PercolatorInfile	protected
PIN_SCORE enum value	PercolatorInfile	protected
PIN_SPEC_ID enum value	PercolatorInfile	protected
PinColumn_ enum name	PercolatorInfile	protected
PinFeatureMetaValueMap typedef	PercolatorInfile
pinHitColumns_(const PeptideHit &hit, bool decoy, const std::string &spec_id, Int scan_number, double exp_mass, double retention_time, const PinEnzyme_ &enz, int min_charge, int max_charge, Exists &&exists, Get &&get, Put &&put)	PercolatorInfile	protectedstatic
PinLookup_ enum name	PercolatorInfile	protected
preparePin_(const PeptideIdentificationList &peptide_ids, const StringList &feature_set, const std::string &enz, int min_charge, int max_charge)	PercolatorInfile	protectedstatic
refreshPinMetaValues(PeptideIdentificationList &peptide_ids, const std::string &enz, int min_charge, int max_charge)	PercolatorInfile	static
stampPinFeaturesOnHits(PeptideIdentificationList &peptide_ids, const std::string &enz, int min_charge, int max_charge)	PercolatorInfile	static
stampPinFeaturesOnHits(PeptideIdentificationList &peptide_ids, const std::string &enz, int min_charge, int max_charge, PinFeatureMetaValueMap &added_meta_values)	PercolatorInfile	static
store(const std::string &pin_file, const PeptideIdentificationList &peptide_ids, const StringList &feature_set, const std::string &enz, int min_charge, int max_charge)	PercolatorInfile	static
warnWithoutScanNumber_(const std::vector< std::string > &without_scan, const std::vector< char > &stamped)	PercolatorInfile	protectedstatic