Method List

Classes Methods Files

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#adapter_setup_1 Genfrag::App::SearchCommand
#adapter_setup_2 Genfrag::App::SearchCommand
#calculate_left_and_right_trims Genfrag::App::SearchCommand
#calculate_trim_for_nucleotides Genfrag::App::SearchCommand
#cli_p Genfrag::App::Command
#cli_run Genfrag::App::SearchCommand
cli_run Genfrag::App
#cli_run Genfrag::App::Command
#cli_run Genfrag::App::IndexCommand
#cli_run Genfrag::App
#clierr_p Genfrag::App::Command
#close Genfrag::App::IndexCommand::DB
#close_csv Genfrag::App::IndexCommand::DB
#close_sqlite Genfrag::App::IndexCommand::DB
#freq_lookup Genfrag::App::IndexCommand::DB
#help Genfrag::App
#initialize Genfrag::App
#initialize Genfrag::App::Command
#initialize Genfrag::App::IndexCommand::DB
#input_filenames Genfrag::App::IndexCommand::DB
#left_tail_of Genfrag::App::SearchCommand
libpath Genfrag
#matches_adapter Genfrag::App::SearchCommand
name_adapters Genfrag
name_freq_lookup Genfrag
name_normalized_fasta Genfrag
#normalized_fasta Genfrag::App::IndexCommand::DB
#ops Genfrag::App::Command
#ops Genfrag::App::IndexCommand::DB
#opt_parser Genfrag::App::IndexCommand
#opt_parser Genfrag::App::SearchCommand
#options Genfrag::App::Command
#parse Genfrag::App::IndexCommand
#parse Genfrag::App::SearchCommand
path Genfrag
#preserve_or_add Genfrag::App::SearchCommand
process_db_fasta_file Genfrag::App::SearchCommand::ProcessFile
process_db_freq_lookup Genfrag::App::SearchCommand::ProcessFile
process_tdf_adapters Genfrag::App::SearchCommand::ProcessFile
process_tdf_fasta_file Genfrag::App::SearchCommand::ProcessFile
process_tdf_freq_lookup Genfrag::App::SearchCommand::ProcessFile
require_all_libs_relative_to Genfrag
#right_tail_of Genfrag::App::SearchCommand
#run Genfrag::App::SearchCommand
#run Genfrag::App::IndexCommand
#run Genfrag::App::Command
#sc Genfrag::App::IndexCommand::DB
#sizes Genfrag::App::IndexCommand
#standard_options Genfrag::App::Command
tracktime Genfrag
#trim_sequences Genfrag::App::SearchCommand
#validate_options Genfrag::App::IndexCommand
#validate_options Genfrag::App::SearchCommand
version Genfrag
#write_entry_to_fasta Genfrag::App::IndexCommand::DB
#write_entry_to_fasta_csv Genfrag::App::IndexCommand::DB
#write_entry_to_fasta_sqlite Genfrag::App::IndexCommand::DB
#write_entry_to_freq Genfrag::App::IndexCommand::DB
#write_entry_to_freq_csv Genfrag::App::IndexCommand::DB
#write_entry_to_freq_sqlite Genfrag::App::IndexCommand::DB
#write_headers Genfrag::App::IndexCommand::DB
#write_headers_csv Genfrag::App::IndexCommand::DB
#write_headers_sqlite Genfrag::App::IndexCommand::DB