This is the complete list of members for OPXLHelper, including all inherited members.
| buildCandidates(const std::vector< OPXLDataStructs::XLPrecursor > &candidates, const std::vector< OPXLDataStructs::AASeqWithMass > &peptide_masses, const StringList &cross_link_residue1, const StringList &cross_link_residue2, double cross_link_mass, const DoubleList &cross_link_mass_mono_link, double precursor_mass, double allowed_error, String cross_link_name, bool n_term_linker, bool c_term_linker) | OPXLHelper | static |
| buildFragmentAnnotations(std::vector< PeptideHit::PeakAnnotation > &frag_annotations, const std::vector< std::pair< Size, Size > > &matching, const PeakSpectrum &theoretical_spectrum, const PeakSpectrum &experiment_spectrum) | OPXLHelper | static |
| buildPeptideIDs(std::vector< PeptideIdentification > &peptide_ids, const std::vector< OPXLDataStructs::CrossLinkSpectrumMatch > &top_csms_spectrum, std::vector< std::vector< OPXLDataStructs::CrossLinkSpectrumMatch > > &all_top_csms, Size all_top_csms_current_index, const PeakMap &spectra, Size scan_index, Size scan_index_heavy) | OPXLHelper | static |
| digestDatabase(std::vector< FASTAFile::FASTAEntry > fasta_db, EnzymaticDigestion digestor, Size min_peptide_length, StringList cross_link_residue1, StringList cross_link_residue2, std::vector< ResidueModification > fixed_modifications, std::vector< ResidueModification > variable_modifications, Size max_variable_mods_per_peptide, Size count_proteins=0, Size count_peptides=0, bool n_term_linker=false, bool c_term_linker=false) | OPXLHelper | static |
| enumerateCrossLinksAndMasses(const std::vector< OPXLDataStructs::AASeqWithMass > &peptides, double cross_link_mass_light, const DoubleList &cross_link_mass_mono_link, const StringList &cross_link_residue1, const StringList &cross_link_residue2, std::vector< double > &spectrum_precursors, double precursor_mass_tolerance, bool precursor_mass_tolerance_unit_ppm) | OPXLHelper | static |
| getModificationsFromStringList(StringList modNames) | OPXLHelper | static |