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#_sys_ind_basename Mspire::Sequest::Params
#aa_mod_to_tot_mass Mspire::Sequest::Pepxml::Modifications
#aa_mods Mspire::Sequest::Pepxml::Modifications
#base_name Mspire::Sequest::Srf
#base_name Mspire::Sequest::Sqt
#combined Mspire::Sequest::Srf::Header
commandline Mspire::Sequest::Srf::Sqt
commandline Mspire::Sequest::Srf::Pepxml
commandline Mspire::Sequest::Srf::Search
#create_static_mods Mspire::Sequest::Pepxml::Modifications
#database Mspire::Sequest::Params
#database_path= Mspire::Sequest::Params
#db_filename Mspire::Sequest::Srf::Header
db_info Mspire::Sequest::Sqt
db_md5sum Mspire::Sequest::Sqt
db_seq_length_and_locus_count Mspire::Sequest::Sqt
#deltacn Mspire::Ident::Pepxml::SearchHit::Sequest
#deltacnstar Mspire::Ident::Pepxml::SearchHit::Sequest
#dta_files Mspire::Sequest::Srf
#dta_gen Mspire::Sequest::Srf::Header
#dta_log_filename Mspire::Sequest::Srf::Header
#dta_start_byte Mspire::Sequest::Srf
#end_mass Mspire::Sequest::Srf::DtaGen
#end_scan Mspire::Sequest::Srf::DtaGen
#enzyme Mspire::Sequest::Params
#enzyme Mspire::Sequest::Srf::Header
#enzyme_specificity Mspire::Sequest::Params
#extension Mspire::Sequest::SqtGroup
#filter_by_precursor_mass_tolerance! Mspire::Sequest::Srf
#filtered_by_precursor_mass_tolerance Mspire::Sequest::Srf
#first_entry Mspire::Sequest::Srf::Out::Protein
#first_entry Mspire::Sequest::Sqt::Locus
#fragment_ion_tol Mspire::Sequest::Params
#fragment_mass_type Mspire::Sequest::Params
#from_file Mspire::Sequest::Sqt
#from_file Mspire::Sequest::Srf
#from_handle Mspire::Sequest::Sqt::Header
#from_io Mspire::Sequest::Srf::DtaGen
from_io Mspire::Sequest::Srf::DtaGen
#from_io Mspire::Sequest::Srf::Header
from_io Mspire::Sequest::Srf::Header
from_io Mspire::Sequest::Srf::Out::Peptide
from_io Mspire::Sequest::Srf::Out
from_io Mspire::Sequest::Srf::Dta
from_line Mspire::Sequest::Sqt::Locus
#from_line Mspire::Sequest::Sqt::Match
#from_line Mspire::Sequest::Sqt::Spectrum
#from_lines Mspire::Sequest::Sqt::Header
get_sequest_params_and_finish_pos Mspire::Sequest::Srf
#grab_params Mspire::Sequest::Params
#group_scan Mspire::Sequest::Srf::DtaGen
#header Mspire::Sequest::Srf
#header Mspire::Sequest::Sqt
#id Mspire::Sequest::Sqt::Locus
#index Mspire::Sequest::Srf
#initialize Mspire::Sequest::Sqt::Locus
#initialize Mspire::Sequest::Sqt
#initialize Mspire::Sequest::SqtGroup
#initialize Mspire::Sequest::Pepxml::Modifications
#initialize Mspire::Sequest::Srf
#initialize Mspire::Sequest::Params
#inspect Mspire::Sequest::Srf::Out::Peptide
#inspect Mspire::Sequest::Srf::Out
#inspect Mspire::Sequest::Srf::Dta
#ion_series Mspire::Sequest::Srf::Header
#mass_index Mspire::Sequest::Params
#max_num_differential_AA_per_mod Mspire::Sequest::Params
#max_num_internal_cleavages Mspire::Sequest::Params
#method_missing Mspire::Sequest::Params
#min_group_count Mspire::Sequest::Srf::DtaGen
#min_ion_threshold Mspire::Sequest::Srf::DtaGen
#min_number_termini Mspire::Sequest::Params
#mod_symbols_hash Mspire::Sequest::Pepxml::Modifications
#model Mspire::Sequest::Srf::Header
#modification_info Mspire::Sequest::Pepxml::Modifications
#modifications Mspire::Sequest::Srf::Header
#modifications Mspire::Sequest::Pepxml::Modifications
#mods Mspire::Sequest::Params
#negative_q_value Mspire::Sequest::Sqt::Match::Percolator
#negative_q_value= Mspire::Sequest::Sqt::Match::Percolator
#num_dta_files Mspire::Sequest::Srf::Header
#num_dta_files Mspire::Sequest::Srf::DtaGen
#opts Mspire::Sequest::Params
#out_files Mspire::Sequest::Srf
#params Mspire::Sequest::Srf
#params Mspire::Sequest::Pepxml::Modifications
#params_filename Mspire::Sequest::Srf::Header
#parse_file Mspire::Sequest::Params
#parse_io Mspire::Sequest::Params
#peptide_mass_tol Mspire::Sequest::Params
#percolator_results Mspire::Sequest::Sqt
#percolator_score Mspire::Sequest::Sqt::Match::Percolator
#percolator_score= Mspire::Sequest::Sqt::Match::Percolator
#precursor_mass_type Mspire::Sequest::Params
#probability Mspire::Sequest::Sqt::Match::Percolator
#protein_class Mspire::Sequest::Srf
#protein_class Mspire::Sequest::Sqt
#proteins Mspire::Sequest::Sqt::Match
#q_value Mspire::Sequest::Sqt::Match::Percolator
#raw_filename Mspire::Sequest::Srf::Header
#read_dta_and_out_interleaved Mspire::Sequest::Srf
#read_dta_files Mspire::Sequest::Srf
read_extra_references Mspire::Sequest::Srf::Out::Peptide
#read_out_files Mspire::Sequest::Srf
#read_scan_index Mspire::Sequest::Srf
#reference Mspire::Sequest::Sqt::Locus
#resident_dir Mspire::Sequest::Srf
#round Mspire::Sequest::Srf::Dta
#sample_enzyme Mspire::Sequest::Params
#sample_enzyme_hash Mspire::Sequest::Params
#search_class Mspire::Sequest::SqtGroup
#sequence Mspire::Sequest::Params
#sequest_log_filename Mspire::Sequest::Srf::Header
set_deltacn Mspire::Sequest::Sqt::Spectrum
set_deltacn_from_deltacn_orig Mspire::Sequest::Srf::Out::Peptide
#set_hashes Mspire::Sequest::Pepxml::Modifications
#set_modifications Mspire::Sequest::Pepxml::Modifications
#spectra Mspire::Sequest::Sqt
spectra_from_handle Mspire::Sequest::Sqt::Spectrum
split_ions Mspire::Ident::Pepxml::SearchHit::Sequest
#sprank Mspire::Ident::Pepxml::SearchHit::Sequest
#spscore Mspire::Ident::Pepxml::SearchHit::Sequest
#start_mass Mspire::Sequest::Srf::DtaGen
#start_scan Mspire::Sequest::Srf::DtaGen
#start_time Mspire::Sequest::Srf::DtaGen
#static_mods Mspire::Sequest::Params
#term_mods Mspire::Sequest::Pepxml::Modifications
#to_dta Mspire::Sequest::Srf::Search
#to_dta_file_data Mspire::Sequest::Srf::Dta
#to_mgf Mspire::Sequest::Srf::Search
#to_pepxml Mspire::Sequest::Srf::Pepxml
#to_sqt Mspire::Sequest::Srf::Sqt
#to_xml Mspire::Ident::Pepxml::SearchHit::Sequest
update_deltacns_from_xcorr Mspire::Sequest::Srf::Out::Peptide
#version Mspire::Sequest::Params
#version Mspire::Sequest::Srf::Header
#version Mspire::Sequest::Srf
#write_dta_file Mspire::Sequest::Srf::Dta
#xcorr Mspire::Ident::Pepxml::SearchHit::Sequest