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#+ Bioroebe::RawSequence
#<< Bioroebe::RawSequence
#A Bioroebe::GUI::Gtk::ShowCodonTable
#Bioroebe Top Level Namespace
#C Bioroebe::GUI::Gtk::ShowCodonTable
#G Bioroebe::GUI::Gtk::ShowCodonTable
#Sequence Bioroebe
#T Bioroebe::GUI::Gtk::ShowCodonTable
[] Bioroebe::UsefulFormulas
[] Bioroebe::ParseFrequencyTable
[] Bioroebe::AminoacidSubstitution
[] Bioroebe::Alignment
[] Bioroebe::MirrorRepeat
[] Bioroebe::LengthModifier
[] Bioroebe::GenbankFlatFileFormatGenerator
[] Bioroebe::ShowHydrophobicity
[] Bioroebe::DetermineAntigenicAreas
[] Bioroebe::AlignOpenReadingFrames
[] Bioroebe::PossibleCodonsForThisAminoacid
[] Bioroebe::CreateBatchEntrezFile
[] Bioroebe::GUI::Tk::BlosumMatrixViewer
[] Bioroebe::GUI::Tk::LevenstheinDistance
[] Bioroebe::ColourScheme::Score
[] Bioroebe::SanitizeNucleotideSequence
[] Bioroebe::GUI::Tk::HammingDistance
[] Bioroebe::Shell
[] Bioroebe::SplitThisFastaFileIntoChromosomes
[] Bioroebe::Permutations
[] Bioroebe::ParseFastq
[] Bioroebe::ColourScheme::Simple
[] Bioroebe::FastaToYaml
[] Bioroebe::ParseFasta
[] Bioroebe::MoveFileToItsCorrectLocation
[] Bioroebe::AdvancedDotplot
#[] Bioroebe::ParseFasta
[] Bioroebe::GenbankParser
[] Bioroebe::Cell
[] Bioroebe::Genome
[] Bioroebe::Levensthein
[] Bioroebe::ShowThisDNASequence
[] Bioroebe::Taxonomy::Helpline
[] Bioroebe::GUI::Tk::AminoacidComposition
[] Bioroebe::ReportSecondaryStructuresFromThisPdbFile
#[] Bioroebe::Matrix
#[] Bioroebe::Taxonomy::Chart
[] Bioroebe::DetermineOptimalCodons
[] Bioroebe::SanitizeCodonFrequency
[] Bioroebe::AnalyseGlycosylationPattern
[] Bioroebe::HammingDistance
[] Bioroebe::ShowCodonUsage
[] Bioroebe::FastqFormatExplainer
[] Bioroebe::ReverseComplement
[] Bioroebe::AnalyseLocalDataset
[] Bioroebe::AutocorrectTheNameOfThisFastaFile
[] Bioroebe::MatplotlibGenerator
[] Bioroebe::ShowFastaStatistics
[] Bioroebe::FastaDefline
[] Bioroebe::DetectMinimalCodon
[] Bioroebe::DnaToAminoacidSequence
[] Bioroebe::Taxonomy::IsDNA
[] Bioroebe::Shell::Help
[] Bioroebe::RGG_Scanner
[] Bioroebe::ConvertAminoacidToDNA
[] Bioroebe::ScanForRepeat
[] Bioroebe::CreateAnnotationFormat
[] Bioroebe::GUI::Gtk::DnaToAminoacidWidget
[] Bioroebe::DotAlignment
[] Bioroebe::CodonPercentage
[] Bioroebe::DeduceAminoacidSequence
[] Bioroebe::Sequence
[] Bioroebe
[] Bioroebe::Trypsin
[] Bioroebe::DownloadFilesFromRebase
[] Bioroebe::GUI::Gtk::DnaToReverseComplementWidget
#[] Bioroebe::CodonPercentage
[] Bioroebe::RestrictionEnzyme
[] Bioroebe::Quiz::ThreeLetterToAminoacid
[] Bioroebe::SimplifyFastaHeader
[] Bioroebe::VerboseTruth
[] Bioroebe::CodonTable
[] Bioroebe::DisplayAminoacidTable
[] Bioroebe::PalindromeGenerator
[] Bioroebe::ProfilePattern
[] Bioroebe::ShowRestrictionEnzymes
[] Bioroebe::FindGene
[] Bioroebe::ColourizeSequence
[] Bioroebe::GUI::Tk::ThreeToOne
[] Bioroebe::DisplayHowManyFastaEntriesAreInThisDirectory
[] Bioroebe::MostLikelyNucleotideSequenceForThisAminoacidSequence
[] Bioroebe::PhredQualityScoreTable
#[]= Bioroebe::RawSequence
#[]= Bioroebe::Matrix
#_ Bioroebe::ElectronMicroscopy::ReadFileXMD
#_ Bioroebe::HelixWheel
#a_new_file_has_been_loaded Bioroebe::GUI::Gtk::ParsePdbFile
#aa_to_dna Bioroebe::Shell
#accession? Bioroebe::FastaDefline
#accession_id? Bioroebe::Parser::GFF
#active_chromosome? Bioroebe::SplitThisFastaFileIntoChromosomes
#active_text? Bioroebe::GUI::ShowCodonTableModule
ad_hoc_task Bioroebe
#add Bioroebe::MatplotlibGenerator
#add Bioroebe::ElectronMicroscopy::CoordinateAnalyzer
#add Bioroebe::Shell::Help
#add Bioroebe::SVG::Track
#add Bioroebe::GenbankFlatFileFormatGenerator
#add_comment Bioroebe::Taxonomy::Interactive
#add_default_import_statement Bioroebe::MatplotlibGenerator
#add_default_path_to_python Bioroebe::MatplotlibGenerator
#add_gene Bioroebe::GenomePattern
#add_his_tag Bioroebe::Shell
#add_how_many_alpha_helices_can_be_found_in_this_protein Bioroebe::GUI::Gtk::ParsePdbFile
#add_information_about_how_many_atom_entries_are_part_of_that_pdb_file Bioroebe::GUI::Gtk::ParsePdbFile
#add_length_information_to_the_header Bioroebe::ParseFasta
#add_n_nucleotides Bioroebe::Shell
#add_name_of_the_gene_to_the_first_line Bioroebe::CreateAnnotationFormat
#add_poly_a_sequence Bioroebe::Shell
#add_primitive Bioroebe::SVG::SVGEE
#add_required_content Bioroebe::GenbankFlatFileFormatGenerator
#add_status_message Bioroebe::GUI::Gtk::RestrictionEnzymes
#add_the_aminoacid_sequence Bioroebe::GUI::Gtk::ParsePdbFile
#add_the_current_user_input_to_the_history Bioroebe::Shell
#add_the_header_bar Bioroebe::GUI::Gtk::PrimerDesignWidget
#add_the_main_label Bioroebe::GUI::Gtk::PrimerDesignWidget
#add_the_maximum_difference_between_the_atoms Bioroebe::GUI::Gtk::ParsePdbFile
#add_these_entries_to_the_fasta_files Bioroebe::ShowFastaStatistics
#add_this_widget Bioroebe::GUI::Gtk::CustomizedDialog
#add_timer_snapshot Bioroebe::Shell
#add_to_end Bioroebe::Shell
#add_to_history Bioroebe::Shell
#add_to_start Bioroebe::Shell
#add_to_start_or_end Bioroebe::Shell
#add_track Bioroebe::SVG::Page
#add_vertical_barrier_to_sequence Bioroebe::Shell
#adenin? Bioroebe::Shell
#align_ORFS Bioroebe::Shell
align_this_string_via_multiple_sequence_alignment Bioroebe
#alignment? Bioroebe::Matrix
#alignment_inspect Bioroebe::SmithWaterman
#aliphatic_index Bioroebe::Protein
#alive? Bioroebe::Biomart::Server
#alive? Bioroebe::Biomart::Dataset
#all_accession_entries Bioroebe::Taxonomy::ParseFasta
#all_aminoacids? Bioroebe::CommandlineApplication
all_aminoacids? Bioroebe
#all_aminoacids? Bioroebe
#all_arguments? Bioroebe::Shell
#all_purines? Bioroebe::DetectMinimalCodon
#all_pyrimidines? Bioroebe::DetectMinimalCodon
#all_upcase? Bioroebe::Shell
#allow_only_valid_dna Bioroebe::NucleotideModule
allowed_dna_nucleotides? Bioroebe
amino_acid_average_mass Bioroebe
amino_acid_monoisotopic_mass Bioroebe
#amino_acid_sequence? Bioroebe::CreateRandomAminoacids
aminoacid_families? Bioroebe
aminoacid_frequency Bioroebe
#aminoacid_one_letter_to_full_name Bioroebe::Quiz::ThreeLetterToAminoacid
#aminoacid_sequence? Bioroebe::GUI::Gtk::RandomSequence
#aminoacid_sequence? Bioroebe::DeduceAminoacidSequence
#aminoacid_sequence? Bioroebe::ParsePdbFile
#aminoacid_sequence? Bioroebe::GUI::ProteinToDNAModule
#aminoacid_sequence? Bioroebe::GUI::LibUI::RandomSequence
aminoacid_substitution Bioroebe
#aminoacid_to_possible_codons Bioroebe::DeduceAminoacidSequence
aminoacids? Bioroebe
#analyse_composition Bioroebe::CountAmountOfAminoacids
#analyse_the_working_directory Bioroebe::AnalyseLocalDataset
#analyse_this_dataset Bioroebe::GenbankParser
#analyze Bioroebe::Shell
#analyze_dataset Bioroebe::ElectronMicroscopy::CoordinateAnalyzer
#analyze_dna_string Bioroebe::Shell
#analyze_main_sequence Bioroebe::AlignOpenReadingFrames
#analyze_the_dataset Bioroebe::ParsePdbFile
#annotate_this_file Bioroebe::Shell
#append Bioroebe::Shell
#append_exon_string Bioroebe::CreateAnnotationFormat
#append_newline Bioroebe::SplitThisFastaFileIntoChromosomes
#append_newline Bioroebe::CreateAnnotationFormat
#append_this_fasta_file Bioroebe::GUI::Gtk::FastaTableWidget
#append_this_line_into_that_file Bioroebe::SplitThisFastaFileIntoChromosomes
#append_this_line_into_the_default_chromosome Bioroebe::SplitThisFastaFileIntoChromosomes
#append_what_into Bioroebe::CommandlineApplication
#append_what_into Bioroebe::Base
append_what_into Bioroebe
#args Bioroebe::SVG::Track
#array_all_discovered_codons? Bioroebe::DeduceAminoacidSequence
#array_cmds? Bioroebe::RNALfoldWrapper
array_colourize_this_aminoacid Bioroebe
#array_fasta? Bioroebe::Shell
#array_genes? Bioroebe::GenomePattern
#array_history? Bioroebe::Shell
#array_like_result? Bioroebe::PossibleCodonsForThisAminoacid
#array_size? Bioroebe::Taxonomy
#array_timer_snapshots? Bioroebe::Shell
#ask_the_question Bioroebe::Quiz::ThreeLetterToAminoacid
#ask_the_user_to_assign_different_scores Bioroebe::Levensthein
#assign_sequence2 Bioroebe::Shell
#assign_this_fasta_file Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#assume_what_type_this_is Bioroebe::Shell
#at_home? Bioroebe::CommandlineApplication
#at_percentage Bioroebe::NucleotideModule
atomic_composition Bioroebe
#attach_all_proper_values_to_the_main_table Bioroebe::GUI::Gtk::ShowCodonTable
#attempt_to_discover_dna_A_boxes Bioroebe::Shell
#attributes Bioroebe::Biomart::Dataset
#automatic_support_for_nucleotides Bioroebe::Sequence
#automatically_rename_this_fasta_file Bioroebe::Shell
automatically_rename_this_fasta_file Bioroebe
available_blosum_files? Bioroebe::Blosum
available_blosum_matrices? Bioroebe
available_codon_tables? Bioroebe
#back_from_rna Bioroebe::NucleotideModule
#backtranseq Bioroebe::Shell
#base? Bioroebe::ElectronMicroscopy::CoordinateAnalyzer
base_composition Bioroebe
base_directory? Bioroebe
batch_create_windows_executables Bioroebe
batch_process Bioroebe::Taxonomy::ParseFasta
#batch_require_all_relevant_gtk3_files Bioroebe::GUI::Gtk::Controller
#be Bioroebe::Taxonomy::Interactive
#be_quiet Bioroebe::DnaToAminoacidSequence
be_quiet Bioroebe::Taxonomy::Shared
#be_quiet_and_no_colours Bioroebe::DnaToAminoacidSequence
#be_silent Bioroebe::CommandlineApplication
#be_silent Bioroebe::Taxonomy::Interactive
#be_verbose Bioroebe::Taxonomy::Interactive
be_verbose? Bioroebe::Taxonomy::Shared
be_verbose? Bioroebe
#be_verbose? Bioroebe::CommandlineApplication
#be_verbose? Bioroebe::GenomePattern
be_verbose? Bioroebe::Taxonomy
#be_verbose? Bioroebe::Taxonomy::Interactive
#be_verbose? Bioroebe::Taxonomy::Shared
#bioshell_log_dir? Bioroebe::Shell
#bisulfite Bioroebe::Shell
bisulfite_treatment Bioroebe
blast_neighborhood Bioroebe
#block_gaps Bioroebe::SVG::MiniFeature
blosum_directory? Bioroebe
blosum_matrix Bioroebe
#body Bioroebe::ElectronMicroscopy::ReadFileXMD
#body? Bioroebe::ParsePdbFile
#body? Bioroebe::ElectronMicroscopy::ReadFileXMD
#bold_A Bioroebe::GUI::Gtk::ShowCodonTable
#bold_C Bioroebe::GUI::Gtk::ShowCodonTable
#bold_G Bioroebe::GUI::Gtk::ShowCodonTable
#bold_T Bioroebe::GUI::Gtk::ShowCodonTable
#border_size? Bioroebe::GUI::Gtk::Alignment
#border_size? Bioroebe::GUI::Gtk::ParsePdbFile
#border_size? Bioroebe::GUI::ProteinToDNAModule
#border_size? Bioroebe::GUI::Gtk::Gene
#border_size? Bioroebe::GUI::ShowCodonTableModule
#border_size? Bioroebe::GUI::Gtk::WwwFinder
#border_size? Bioroebe::GUI::DnaToReverseComplementWidgetModule
#border_size? Bioroebe::GUI::Gtk::RestrictionEnzymes
#border_size? Bioroebe::GUI::Gtk::Controller
#border_size? Bioroebe::GUI::AntiSenseStrand
#border_size? Bioroebe::GUI::Gtk::FormatConverter
#border_size? Bioroebe::GUI::Gtk::ThreeToOne
#border_size? Bioroebe::GUI::Gtk::Snapgene
#border_size? Bioroebe::GUI::Gtk::BlosumMatrixViewer
#border_size? Bioroebe::GUI::Gtk::NucleotideAnalyser
#border_size? Bioroebe::GUI::Gtk::Sizeseq
#border_size? Bioroebe::GUI::Gtk::DnaToReverseComplementWidget
#border_size? Bioroebe::GUI::Gtk::AminoacidComposition
#border_size? Bioroebe::GUI::Gtk::RandomSequence
#border_size? Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#border_size? Bioroebe::GUI::Gtk::HammingDistance
#border_size? Bioroebe::GUI::Gtk::FastaTableWidget
#border_size? Bioroebe::GUI::Gtk::PrimerDesignWidget
#border_size? Bioroebe::GUI::CalculateCellNumbersOfBacteriaModule
#border_size? Bioroebe::GUI::Gtk::ShowCodonTable
#border_size? Bioroebe::GUI::ShowCodonUsageModule
#border_size? Bioroebe::GUI::LevenstheinDistanceModule
#br Bioroebe::ColourSchemeDemo
#build_help_string Bioroebe::Shell::Help
#build_string Bioroebe::HelixWheel
#button_trigger_the_conversion? Bioroebe::GUI::Gtk::DnaToAminoacidWidget
by_name Bioroebe::CodonTable
#calculate_Tm_value Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#calculate_atp_cost_for Bioroebe::Shell
calculate_exponential_growth Bioroebe
#calculate_exponential_growth Bioroebe::Shell
#calculate_frequencies_of Bioroebe::ConsensusSequence
#calculate_gc_content Bioroebe::ParseFasta
#calculate_hamming_distance_of Bioroebe::Shell
calculate_levensthein_distance Bioroebe
#calculate_levensthein_distance Bioroebe::RawSequence
#calculate_melting_temperature Bioroebe::Shell
calculate_melting_temperature_for_more_than_thirteen_nucleotides Bioroebe
calculate_n50_value Bioroebe
calculate_original_amount_of_cells_of_exponential_growth Bioroebe
#calculate_the_amount_of_mismatches_and_gaps Bioroebe::Levensthein
#calculate_the_centroid_position Bioroebe::ParsePdbFile
#calculate_the_distance_between_two_points Bioroebe::ParsePdbFile
calculate_the_frequencies_of_this_species Bioroebe
#calculate_the_total_cost Bioroebe::Levensthein
#calculate_time_difference Bioroebe::Shell
#calculate_tm Bioroebe::CalculateMeltingTemperature
calculate_weight_of_the_aminoacids_in_this_fasta_file Bioroebe
#calculated_weight? Bioroebe::GUI::Gtk::FormatConverter
#calculated_weight? Bioroebe::GUI::Gtk::AminoacidComposition
#calculcate_at_content Bioroebe::Shell
#calculcate_gc_content Bioroebe::Shell
#can_base_pair? Bioroebe::Base
#can_be_N_glycosylated? Bioroebe::Protein
#can_be_stained_via_coomassie? Bioroebe::Protein
#can_cut_this_sequence? Bioroebe::RestrictionEnzyme
#can_form_disulfide_bonds? Bioroebe::Protein
#cat Bioroebe
cat Bioroebe
#cat Bioroebe::CommandlineApplication
#ccliner Bioroebe::CommandlineApplication
cd Bioroebe::Ncbi
cd Bioroebe::Taxonomy
#cd Bioroebe::Taxonomy::Shared
#change_directory Bioroebe::CommandlineApplication
change_directory Bioroebe
#change_first_nucleotide_to Bioroebe::Shell
#change_label Bioroebe::GUI::Gtk::ShowCodonTable
#chars? Bioroebe::RawSequence
#chdir Bioroebe::Shell
#check_commandline_arguments Bioroebe::Taxonomy::Interactive
#check_for_commandline_arguments Bioroebe::GUI::LevenstheinDistanceModule
#check_for_genbank_common_name Bioroebe::Taxonomy::Info
#check_for_local_vectors Bioroebe::Shell
#check_for_mismatches Bioroebe::Shell
#check_for_taxonomy_id Bioroebe::Taxonomy::Info
#check_if_the_file_exists Bioroebe::BlosumParser
#check_whether_the_fastq_format_is_valid Bioroebe::ParseFastq
#check_whether_this_pdb_sequence_contains_dna Bioroebe::ParsePdbFile
#check_whether_we_have_dna_as_input Bioroebe::FindGene
#chop Bioroebe::Shell
#chop_down_to_sequence_length Bioroebe::CheckForMismatches
#chop_to Bioroebe::Shell
#chromosome_form? Bioroebe::GenbankFlatFileFormatGenerator
#chunked_display Bioroebe::Shell
circle Bioroebe::SVG::Glyph
#citations? Bioroebe::Taxonomy
#clean Bioroebe::Taxonomy
cleanup Bioroebe::Taxonomy
#clear Bioroebe::Shell
clear_array_colourize_this_aminoacid Bioroebe
#clear_coordinates Bioroebe::ElectronMicroscopy::ParseCoordinates
#clear_padding Bioroebe::ShowNucleotideSequence
clear_stop_codons Bioroebe
#clear_table Bioroebe::GUI::Gtk::NucleotideAnalyser
#clear_the_main_hash_before_syncing_the_dataset_onto_the_main_table Bioroebe::GUI::Gtk::ShowCodonTable
#clear_the_old_dataset Bioroebe::GUI::Gtk::FastaTableWidget
cleave Bioroebe
cleave_with_trypsin Bioroebe
cliner Bioroebe
#cliner Bioroebe::CommandlineApplication
#close_tag Bioroebe::SVG::SVGEE
#cmdline? Bioroebe::GenomePattern
#coding_area? Bioroebe::Shell
#codon Bioroebe::Shell
codon_frequencies_of_this_sequence Bioroebe
codon_frequency_of_this_string Bioroebe
#codon_percenage? Bioroebe::MostLikelyNucleotideSequenceForThisAminoacidSequence
#codon_table? Bioroebe::CodonPercentage
#codon_table_dataset? Bioroebe::CommandlineApplication
codon_table_dataset? Bioroebe
codon_table_in_use? Bioroebe
codon_tables Bioroebe
#codon_to_aminoacid Bioroebe::NucleotideModule
#codon_to_aminoacid Bioroebe::CommandlineApplication
#codon_to_aminoacid Bioroebe::ShowCodonUsage
#codon_to_aminoacid Bioroebe::Shell
#codons_for? Bioroebe::CommandlineApplication
codons_for_this_aminoacid? Bioroebe
#col1 Bioroebe::UsefulFormulas
colour? Bioroebe::Shell
#colour_for Bioroebe::GUI::AntiSenseStrand
#colour_for_nucleotide Bioroebe::Shell
#colour_for_stop_codon Bioroebe::Shell
#colour_scheme_demo Bioroebe::Shell
#colour_scheme_for_aminoacids Bioroebe::Shell
#colour_scheme_for_nucleotides Bioroebe::Shell
colourize_TAA_stop_codon Bioroebe::Colourize
colourize_TAG_stop_codon Bioroebe::Colourize
colourize_TGA_stop_codon Bioroebe::Colourize
colourize_TUG_start_codon Bioroebe::Colourize
colourize_aa Bioroebe
#colourize_contig Bioroebe::GUI::Gtk::Gene
#colourize_dna Bioroebe::DisplayOpenReadingFrames
#colourize_dna_sequence Bioroebe::ShowNucleotideSequence
#colourize_fasta_file Bioroebe::Shell
#colourize_in_green Bioroebe::HammingDistance
#colourize_in_red Bioroebe::HammingDistance
#colourize_nucleotide Bioroebe::Shell
#colourize_nucleotide_position Bioroebe::ConsensusSequence
#colourize_stop_codons_in_red? Bioroebe::ShowOrf
colourize_this_FASTA_sequence Bioroebe::Colourize
#colourize_this_aminoacid Bioroebe::ReportSecondaryStructuresFromThisPdbFile
#colourize_this_aminoacid Bioroebe::Shell
#colourize_this_aminoacid_sequence Bioroebe::DisplayOpenReadingFrames
#colourize_this_aminoacid_sequence_for_the_commandline Bioroebe::ColoursForBase
colourize_this_aminoacid_sequence_for_the_commandline Bioroebe
#colourize_this_aminoacid_three_to_one Bioroebe::ReportSecondaryStructuresFromThisPdbFile
#colourize_this_dna_sequence Bioroebe::CommandlineApplication
colourize_this_fasta_dna_sequence Bioroebe
#colourize_this_nucleotide_sequence Bioroebe::ColoursForBase
#colourize_this_sequence_in_that_colour Bioroebe::ColourizeSequence
#colourize_value Bioroebe::ShowRestrictionEnzymes
#colourized_frame1 Bioroebe::DisplayOpenReadingFrames
#colourized_frame2 Bioroebe::DisplayOpenReadingFrames
#colourized_frame3 Bioroebe::DisplayOpenReadingFrames
#colourized_line Bioroebe::ShowThisCodonTable
#colourized_reverse_frame1 Bioroebe::DisplayOpenReadingFrames
#colourized_reverse_frame2 Bioroebe::DisplayOpenReadingFrames
#colourized_reverse_frame3 Bioroebe::DisplayOpenReadingFrames
colours Bioroebe
colours Bioroebe::ColourScheme::Simple
colours Bioroebe::ColourScheme::Score
#commandline_arguments? Bioroebe::GUI::Tk::ThreeToOne
#commandline_arguments? Bioroebe::GUI::Tk::AminoacidComposition
#commandline_arguments? Bioroebe::CommandlineArguments
#commandline_arguments? Bioroebe::GUI::Tk::BlosumMatrixViewer
#commandline_arguments_that_are_files? Bioroebe::CommandlineArguments
#comments Bioroebe::Taxonomy::Node
#compact_file Bioroebe::Shell
#compare_and_change_last_tokens Bioroebe::DetectMinimalCodon
#compare_gc_content Bioroebe::CalculateGCContent
#compare_the_two_sequences Bioroebe::GUI::Tk::HammingDistance
#compare_the_two_sequences Bioroebe::GUI::Tk::LevenstheinDistance
#compare_the_two_sequences Bioroebe::GUI::LibUI::HammingDistance
#compare_the_two_sequences Bioroebe::GUI::Gtk::HammingDistance
#compare_two_files Bioroebe::Shell
#compare_two_strings_as_alignment Bioroebe::Shell
complement Bioroebe
#complement Bioroebe::ShowOrf
#complement Bioroebe::RawSequence
#complement Bioroebe::CommandlineApplication
#complement? Bioroebe::ReverseComplement
complementary_dna_strand Bioroebe
complementary_rna_strand Bioroebe
complementary_strand Bioroebe::NucleotideModule
#complementary_strand Bioroebe::NucleotideModule
#composition? Bioroebe::RawSequence
compseq Bioroebe
#compseq Bioroebe::Shell
#compute_boundaries Bioroebe::SVG::Page
#concentration_of_sodium Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#condense_the_sequence_onto_a_single_line? Bioroebe::ParseFasta
#config Bioroebe::SmithWaterman
#config? Bioroebe::Shell
#connect_skeleton Bioroebe::GUI::LibUI::DnaToReverseComplementWidget
#connect_skeleton Bioroebe::GUI::Gtk::CalculateCellNumbersOfBacteria
#connect_skeleton Bioroebe::GUI::Gtk::FastaTableWidget
#connect_skeleton Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#connect_skeleton Bioroebe::GUI::Gtk::BlosumMatrixViewer
#connect_skeleton Bioroebe::GUI::Gtk::FormatConverter
#connect_skeleton Bioroebe::GUI::Gtk::Sizeseq
#connect_skeleton Bioroebe::GUI::AntiSenseStrand
#connect_skeleton Bioroebe::GUI::Gtk::NucleotideAnalyser
#connect_skeleton Bioroebe::GUI::Gtk::ThreeToOne
#connect_skeleton Bioroebe::GUI::Gtk::Alignment
#connect_skeleton Bioroebe::GUI::LibUI::CalculateCellNumbersOfBacteria
#connect_skeleton Bioroebe::GUI::Gtk::RandomSequence
#connect_skeleton Bioroebe::GUI::Gtk::ShowCodonUsage
#connect_skeleton Bioroebe::GUI::Gtk::DnaToReverseComplementWidget
#connect_skeleton Bioroebe::GUI::Gtk::HammingDistance
#connect_skeleton Bioroebe::GUI::Gtk::AminoacidComposition
#connect_skeleton Bioroebe::GUI::Gtk::ParsePdbFile
#connect_skeleton Bioroebe::GUI::Gtk::RestrictionEnzymes
#connect_skeleton Bioroebe::GUI::Gtk::ShowCodonTable
#connect_skeleton Bioroebe::GUI::Gtk::Controller
#connect_skeleton Bioroebe::GUI::Gtk::ProteinToDNA
#connect_skeleton Bioroebe::GUI::Gtk::PrimerDesignWidget
#connect_skeleton Bioroebe::GUI::LibUI::ProteinToDNA
#connect_skeleton Bioroebe::GUI::Gtk::Gene
#connect_skeleton Bioroebe::GUI::Gtk::Snapgene
#connect_skeleton Bioroebe::GUI::Gtk::WwwFinder
#connect_skeleton Bioroebe::GUI::Gtk::LevenstheinDistance
#consensus_sequence? Bioroebe::ConsensusSequence
#consensus_sequence? Bioroebe::Alignment
#consider_analysing_the_local_dataset_on_startup Bioroebe::Shell
#consider_colourizing_CpG_islands Bioroebe::Compseq
#consider_creating_a_fasta_file Bioroebe::ParsePdbFile
#consider_notifying_the_user_if_no_input_was_given Bioroebe::HammingDistance
#consider_notifying_the_user_if_the_sequences_are_not_equal_in_length Bioroebe::SimpleStringComparer
#consider_reading_from_a_file_if_given_as_input_argument_to_this_class Bioroebe::Digestion
#consider_reporting_alpha_helices_that_were_found Bioroebe::ParsePdbFile
#consider_reporting_beta_sheet_that_were_found Bioroebe::ParsePdbFile
#consider_reporting_how_many_chains_are_in_this_structure Bioroebe::ParsePdbFile
#consider_reporting_our_findings_to_the_user Bioroebe::GenbankParser
#consider_reporting_the_aminoacid_sequence Bioroebe::ParsePdbFile
#consider_reporting_the_keywords Bioroebe::ParsePdbFile
#consider_reporting_the_number_of_individual_aminoacids Bioroebe::ParsePdbFile
#consider_reporting_the_number_of_residues Bioroebe::ParsePdbFile
#consider_sanitizing_the_input Bioroebe::GUI::Gtk::HammingDistance
#consider_sanitizing_the_left_input_field_for_dna Bioroebe::GUI::DnaToReverseComplementWidgetModule
#consider_using_a_specific_codon_table Bioroebe::ShowThisCodonTable
#considering_changing_the_title_of_the_kde_konsole_tab Bioroebe::Shell
#considering_splitting_the_gff_file_into_standalone_iles Bioroebe::Parser::GFF
#convert_five_prime_dna_into_five_prime_mrna Bioroebe::Shell
convert_global_env Bioroebe
#convert_global_env Bioroebe::Base
convert_one_letter_to_full Bioroebe
convert_one_letter_to_three Bioroebe
#convert_this_alphabet_character_to_number Bioroebe::ParsePdbFile
convert_this_codon_to_that_aminoacid Bioroebe
#coordinates? Bioroebe::ElectronMicroscopy::ParseCoordinates
#copy_bioroebe_shell_before_quitting Bioroebe::Shell
#corresponding_datafile? Bioroebe::Taxonomy::Info
#corresponding_nucleotide Bioroebe::CheckForMismatches
#cos Bioroebe::HelixWheel
#could_be Bioroebe::AnalyseGlycosylationPattern
#could_this_be_an_amino_acid? Bioroebe::Shell
#count Bioroebe::RawSequence
#count Bioroebe::Biomart::Dataset
#count Bioroebe::Compseq
#count_AA Bioroebe::Compseq
#count_AC Bioroebe::Compseq
#count_AG Bioroebe::Compseq
#count_AT Bioroebe::Compseq
count_AT Bioroebe
#count_CA Bioroebe::Compseq
#count_CC Bioroebe::Compseq
#count_CG Bioroebe::Compseq
#count_CT Bioroebe::Compseq
#count_GA Bioroebe::Compseq
count_GC Bioroebe
#count_GC Bioroebe::Compseq
#count_GG Bioroebe::Compseq
#count_GT Bioroebe::Compseq
#count_TA Bioroebe::Compseq
#count_TC Bioroebe::Compseq
#count_TG Bioroebe::Compseq
#count_TT Bioroebe::Compseq
count_amount_of_aminoacids Bioroebe
#count_amount_of_aminoacids Bioroebe::Shell
count_amount_of_nucleotides Bioroebe
#count_frequencies Bioroebe::Compseq
#count_frequencies_of_the_nucleotides Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#cp Bioroebe::CommandlineApplication
#create_and_add_menu Bioroebe::GUI::AntiSenseStrand
#create_and_save_table Bioroebe::Taxonomy::Interactive
#create_balanced_composition Bioroebe::Shell
#create_box_top_five_codons Bioroebe::GUI::ShowCodonUsageModule
#create_button Bioroebe::GUI::Gtk::ThreeToOne
#create_button_trigger_conversion Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#create_button_trigger_conversion Bioroebe::GUI::DnaToReverseComplementWidgetModule
#create_buttons Bioroebe::GUI::Gtk::WwwFinder
#create_buttons Bioroebe::GUI::ProteinToDNAModule
#create_buttons Bioroebe::GUI::Gtk::NucleotideAnalyser
#create_check_boxes Bioroebe::GUI::Gtk::WwwFinder
#create_combo_box Bioroebe::GUI::Gtk::RestrictionEnzymes
#create_compare_button Bioroebe::GUI::Gtk::HammingDistance
#create_csv_file Bioroebe::CountAmountOfAminoacids
#create_database Bioroebe::Taxonomy::Interactive
#create_default_directories Bioroebe::Taxonomy::Interactive
create_demo_file Bioroebe::ColourSchemeDemo
#create_dirs Bioroebe::Taxonomy::Interactive
#create_entries Bioroebe::GUI::Gtk::WwwFinder
#create_entries Bioroebe::GUI::Gtk::HammingDistance
#create_entries Bioroebe::GUI::Gtk::ThreeToOne
#create_entries Bioroebe::GUI::Gtk::PrimerDesignWidget
#create_entries Bioroebe::GUI::Gtk::RestrictionEnzymes
#create_entry Bioroebe::GUI::Gtk::NucleotideAnalyser
#create_fasta_file Bioroebe::Shell
#create_fasta_table Bioroebe::Taxonomy::Interactive
create_file Bioroebe
#create_grid Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#create_hbox_containing_the_two_input_fields Bioroebe::GUI::DnaToReverseComplementWidgetModule
#create_input_fields Bioroebe::GUI::DnaToReverseComplementWidgetModule
create_jar_archive Bioroebe
#create_left_buffer Bioroebe::GUI::LibUI::ProteinToDNA
#create_left_buffer Bioroebe::GUI::Gtk::ProteinToDNA
#create_menu Bioroebe::GUI::Gtk::WwwFinder
#create_middle_bar_containing_the_arrow_pointing_to_the_right_side Bioroebe::GUI::Gtk::ProteinToDNA
#create_n_random_amino_acids Bioroebe::Shell
create_new_sequence Bioroebe
create_random_aminoacids Bioroebe
#create_right_buffer Bioroebe::GUI::Gtk::ProteinToDNA
#create_right_buffer Bioroebe::GUI::LibUI::ProteinToDNA
#create_scrolled_window Bioroebe::GUI::Gtk::PrimerDesignWidget
#create_skeleton Bioroebe::GUI::LibUI::LevenstheinDistance
#create_skeleton Bioroebe::GUI::LibUI::ShowCodonTable
#create_skeleton Bioroebe::GUI::Gtk::ShowCodonUsage
#create_skeleton Bioroebe::GUI::LibUI::BlosumMatrixViewer
#create_skeleton Bioroebe::GUI::Gtk::Alignment
#create_skeleton Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#create_skeleton Bioroebe::GUI::Gtk::WwwFinder
#create_skeleton Bioroebe::GUI::ProteinToDNAModule
#create_skeleton Bioroebe::GUI::LibUI::RandomSequence
#create_skeleton Bioroebe::GUI::Gtk::FormatConverter
#create_skeleton Bioroebe::GUI::Gtk::Gene
#create_skeleton Bioroebe::GUI::LibUI::ThreeToOne
#create_skeleton Bioroebe::GUI::Gtk::RestrictionEnzymes
#create_skeleton Bioroebe::GUI::Gtk::NucleotideAnalyser
#create_skeleton Bioroebe::GUI::Gtk::PrimerDesignWidget
#create_skeleton Bioroebe::GUI::Gtk::FastaTableWidget
#create_skeleton Bioroebe::GUI::Gtk::ShowCodonTable
#create_skeleton Bioroebe::GUI::Gtk::BlosumMatrixViewer
#create_skeleton Bioroebe::GUI::LibUI::ShowCodonUsage
#create_skeleton Bioroebe::GUI::Gtk::DnaToReverseComplementWidget
#create_skeleton Bioroebe::GUI::Gtk::Sizeseq
#create_skeleton Bioroebe::GUI::Gtk::Controller
#create_skeleton Bioroebe::GUI::LibUI::HammingDistance
#create_skeleton Bioroebe::GUI::Gtk::RandomSequence
#create_skeleton Bioroebe::GUI::LibUI::DnaToReverseComplementWidget
#create_skeleton Bioroebe::GUI::Gtk::LevenstheinDistance
#create_skeleton Bioroebe::GUI::AntiSenseStrand
#create_skeleton Bioroebe::GUI::Gtk::HammingDistance
#create_skeleton Bioroebe::GUI::Gtk::Snapgene
#create_skeleton Bioroebe::GUI::LibUI::ProteinToDNA
#create_skeleton Bioroebe::GUI::LibUI::Alignment
#create_skeleton Bioroebe::GUI::Gtk::ThreeToOne
#create_skeleton Bioroebe::GUI::CalculateCellNumbersOfBacteriaModule
#create_skeleton Bioroebe::GUI::Gtk::AminoacidComposition
#create_skeleton Bioroebe::GUI::LibUI::DnaToAminoacidWidget
#create_skeleton Bioroebe::GUI::Gtk::ParsePdbFile
#create_sql_file_from_local_fasta_entry Bioroebe::Taxonomy::Interactive
#create_statistical_information Bioroebe::GUI::Gtk::RandomSequence
#create_statistical_top_panel Bioroebe::GUI::Gtk::RandomSequence
#create_status_bar Bioroebe::GUI::Gtk::RestrictionEnzymes
#create_table Bioroebe::Taxonomy::Interactive
#create_the_bottom_primer Bioroebe::GUI::Gtk::PrimerDesignWidget
#create_the_box_containing_the_label_and_the_combobox Bioroebe::GUI::Gtk::ShowCodonTable
#create_the_boxes Bioroebe::GUI::AntiSenseStrand
#create_the_boxes Bioroebe::GUI::CalculateCellNumbersOfBacteriaModule
#create_the_button_to_calculate_how_many_bacteria_will_exist Bioroebe::GUI::CalculateCellNumbersOfBacteriaModule
#create_the_buttons Bioroebe::GUI::LevenstheinDistanceModule
#create_the_buttons Bioroebe::GUI::Gtk::Alignment
#create_the_buttons Bioroebe::GUI::Gtk::RandomSequence
#create_the_buttons Bioroebe::GUI::AntiSenseStrand
#create_the_combo_box Bioroebe::GUI::Gtk::BlosumMatrixViewer
#create_the_combo_box Bioroebe::GUI::LibUI::ShowCodonTable
#create_the_combo_box_containing_the_available_codon_tables Bioroebe::GUI::Gtk::ShowCodonTable
#create_the_copy_to_clipboard_button Bioroebe::GUI::Gtk::RandomSequence
#create_the_entries Bioroebe::GUI::LibUI::RandomSequence
#create_the_entries Bioroebe::GUI::Gtk::RandomSequence
#create_the_entries Bioroebe::GUI::LibUI::DnaToAminoacidWidget
#create_the_entries Bioroebe::GUI::LibUI::Alignment
#create_the_entries Bioroebe::GUI::CalculateCellNumbersOfBacteriaModule
#create_the_entries Bioroebe::GUI::Gtk::Alignment
#create_the_entries Bioroebe::GUI::LevenstheinDistanceModule
#create_the_entries Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#create_the_entries Bioroebe::GUI::AntiSenseStrand
#create_the_entry_for_the_codon_table_in_use Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#create_the_event_box Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#create_the_event_box Bioroebe::GUI::Gtk::DnaToReverseComplementWidget
#create_the_first_row Bioroebe::GUI::LevenstheinDistanceModule
#create_the_grid Bioroebe::GUI::Gtk::LevenstheinDistance
#create_the_grid Bioroebe::GUI::AntiSenseStrand
#create_the_grid Bioroebe::GUI::Gtk::DnaToReverseComplementWidget
#create_the_header_bar Bioroebe::GUI::Gtk::Controller
#create_the_header_bar Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#create_the_header_bar Bioroebe::GUI::Gtk::PrimerDesignWidget
#create_the_hspacer Bioroebe::GUI::CalculateCellNumbersOfBacteriaModule
#create_the_label_showing_n_nucleotides Bioroebe::GUI::ShowCodonUsageModule
#create_the_label_top_five_codons Bioroebe::GUI::ShowCodonUsageModule
#create_the_labels Bioroebe::GUI::Gtk::NucleotideAnalyser
#create_the_labels Bioroebe::GUI::LevenstheinDistanceModule
#create_the_left_entry Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#create_the_main_entry Bioroebe::GUI::ShowCodonUsageModule
#create_the_main_table Bioroebe::GUI::Gtk::ShowCodonTable
#create_the_main_window Bioroebe::GUI::AntiSenseStrand
#create_the_notebook Bioroebe::GUI::Gtk::Controller
create_the_pdf_tutorial Bioroebe
#create_the_right_entry Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#create_the_scrolled_window Bioroebe::GUI::Gtk::BlosumMatrixViewer
#create_the_scrolled_window Bioroebe::GUI::Gtk::Alignment
#create_the_scrolled_window Bioroebe::GUI::Gtk::ShowCodonUsage
#create_the_scrolled_window_containing_the_aminoacid_sequence Bioroebe::GUI::Gtk::ParsePdbFile
#create_the_scrolled_window_then_add_the_table_into_it Bioroebe::GUI::Gtk::ShowCodonTable
#create_the_second_row Bioroebe::GUI::LevenstheinDistanceModule
#create_the_text_buffer_and_the_text_view Bioroebe::GUI::Gtk::Alignment
#create_the_text_view Bioroebe::GUI::Gtk::BlosumMatrixViewer
#create_the_text_view Bioroebe::GUI::Gtk::ShowCodonUsage
#create_the_text_view Bioroebe::GUI::ShowCodonUsageModule
#create_the_third_row Bioroebe::GUI::LevenstheinDistanceModule
#create_the_title_bar Bioroebe::GUI::Gtk::ShowCodonTable
#create_the_top_bar Bioroebe::GUI::Gtk::RandomSequence
#create_the_top_labels Bioroebe::GUI::DnaToReverseComplementWidgetModule
#create_the_top_primer Bioroebe::GUI::Gtk::PrimerDesignWidget
#create_the_top_strand Bioroebe::GUI::Gtk::PrimerDesignWidget
#create_the_top_vbox Bioroebe::GUI::Gtk::ShowCodonTable
#create_the_treeview Bioroebe::GUI::Gtk::AminoacidComposition
#create_then_add_the_header_bar Bioroebe::GUI::Gtk::AminoacidComposition
#create_top_hbox Bioroebe::GUI::Gtk::ProteinToDNA
#create_top_hbox Bioroebe::GUI::LibUI::ProteinToDNA
#create_user_input Bioroebe::GUI::Gtk::FormatConverter
#create_user_input Bioroebe::GUI::Gtk::AminoacidComposition
#create_vbox Bioroebe::GUI::Gtk::WwwFinder
#create_view Bioroebe::GUI::Gtk::FastaTableWidget
#current_key? Bioroebe::ParseFasta
#cut Bioroebe::Shell
#cut_at Bioroebe::Shell
#cut_sequence_in_slices_of Bioroebe::Shell
#cut_with_enzyme Bioroebe::NucleotideModule
#cut_with_enzyme Bioroebe::Shell
#cuts_at? Bioroebe::RestrictionEnzyme
#cutseq Bioroebe::Shell
#cyan Bioroebe::ShowThisCodonTable
#cyana Bioroebe::ShowThisCodonTable
#cyanc Bioroebe::ShowThisCodonTable
#cyang Bioroebe::ShowThisCodonTable
#cyanu Bioroebe::ShowThisCodonTable
#cytosin? Bioroebe::Shell
#dalton Bioroebe::Shell
#data? Bioroebe::Taxonomy::Info
#data? Bioroebe::Biomart::BiomartError
#data? Bioroebe::ParseFasta
#databases? Bioroebe::Biomart::Server
#dataset? Bioroebe::ShowThisCodonTable
#dataset? Bioroebe::BlosumParser
#dataset? Bioroebe::ElectronMicroscopy::ParseCoordinates
#dataset? Bioroebe::GenbankParser
#dataset? Bioroebe::CodonPercentage
#dataset_from_every_pathway Bioroebe::Pathways
#datasets? Bioroebe::Biomart::Server
#datasets? Bioroebe::Biomart::Database
#debug Bioroebe::Taxonomy::ParseFasta
decode_this_aminoacid_sequence Bioroebe
deduce_aminoacid_sequence Bioroebe
deduce_most_likely_aminoacid_sequence Bioroebe
deduce_most_likely_aminoacid_sequence_as_string Bioroebe
#deduce_this_aminoacid_sequence Bioroebe::Shell
#default? Bioroebe::Biomart::Attribute
#default? Bioroebe::Biomart::Filter
#default_colour? Bioroebe
default_colour? Bioroebe
#default_length? Bioroebe::Shell
#default_padding Bioroebe::ShowOrf
#default_value Bioroebe::Biomart::Filter
definitions? Bioroebe::CodonTables
#defs? Bioroebe::SVG::SVGEE
#delete Bioroebe::RawSequence
#delete! Bioroebe::RawSequence
#delete_file Bioroebe::Base
delimiter? Bioroebe
#delnodes? Bioroebe::Taxonomy
#description? Bioroebe::Sequence
#deselect_the_main_treeview Bioroebe::GUI::Gtk::FastaTableWidget
#design_polylinker Bioroebe::Shell
#designate_this_input_as_coding_entry Bioroebe::Shell
#determine_a_t_c_g_content Bioroebe::DetermineMissingNucleotidesPercentage
#determine_accession_id_from_this_input Bioroebe::Parser::GFF
#determine_all_codon_methods Bioroebe::ShowThisCodonTable
#determine_all_local_fasta_files Bioroebe::ShowFastaStatistics
#determine_all_six_reading_frames Bioroebe::DisplayOpenReadingFrames
#determine_and_report_all_stop_codons Bioroebe::Shell
#determine_complementary_percentage Bioroebe::DetermineMissingNucleotidesPercentage
#determine_coordinates Bioroebe::ElectronMicroscopy::ParseCoordinates
#determine_dataset Bioroebe::ShowThisCodonTable
#determine_download_location Bioroebe::DownloadTaxonomyDatabase
#determine_frame1 Bioroebe::DisplayOpenReadingFrames
#determine_frame2 Bioroebe::DisplayOpenReadingFrames
#determine_frame3 Bioroebe::DisplayOpenReadingFrames
#determine_how_many_characters_we_have Bioroebe::Taxonomy::IsDNA
#determine_keys Bioroebe::Quiz::ThreeLetterToAminoacid
#determine_log_filename Bioroebe::RNALfoldWrapper
determine_n_glycosylation_matches Bioroebe
#determine_n_nucleotides_in Bioroebe::AlignOpenReadingFrames
#determine_percentage Bioroebe::DetermineMissingNucleotidesPercentage
#determine_result Bioroebe::Compseq
#determine_reverse_frame1 Bioroebe::DisplayOpenReadingFrames
#determine_reverse_frame2 Bioroebe::DisplayOpenReadingFrames
#determine_reverse_frame3 Bioroebe::DisplayOpenReadingFrames
determine_start_codons_from_the_codon_table Bioroebe
determine_stop_codons_from_the_codon_table Bioroebe
#determine_the_amino_acid_sequence Bioroebe::CreateRandomAminoacids
#determine_the_aminoacid_sequence Bioroebe::DeduceAminoacidSequence
#determine_the_codon_for_the_last_button Bioroebe::GUI::Gtk::ShowCodonTable
#determine_the_dna_sequence_based_on_the_main_hash_profile Bioroebe::ProfilePattern
#determine_the_edit_distance Bioroebe::Levensthein
#determine_the_main_sequence Bioroebe::MirrorRepeat
#determine_the_main_sequence Bioroebe::Palindrome2DStructure
#determine_the_main_sequence Bioroebe::ScanForRepeat
#determine_the_prefix_for_the_autogenerated_files Bioroebe::SplitThisFastaFileIntoChromosomes
#determine_the_result Bioroebe::MirrorRepeat
#determine_the_two_sequences_that_are_to_be_compared Bioroebe::DotAlignment
#determine_the_working_directory Bioroebe::AnalyseLocalDataset
#determine_whether_diff_lcs_is_available Bioroebe::FindLongestSubstringViaLCSalgorithm
#determine_whether_we_have_to_download_from_a_remote_url Bioroebe::ParseFrequencyTable
#did_not_find_any_gene Bioroebe::FindGene
#diff_lcs_is_available? Bioroebe::FindLongestSubstringViaLCSalgorithm
digest_this_dna Bioroebe
#dims Bioroebe::Matrix
directed Bioroebe::SVG::Glyph
directory_frequencies? Bioroebe
#directory_to_the_codon_tables? Bioroebe::Base
#disable Bioroebe::Taxonomy::Interactive
#disable Bioroebe::Shell
#disable_colours Bioroebe::Taxonomy::Interactive
#disable_colours Bioroebe::Shell
#disable_colours Bioroebe::ColoursForBase
disable_colours Bioroebe
#disable_truncate Bioroebe::Shell
#disable_warnings Bioroebe::GUI
#disable_warnings Bioroebe::CommandlineApplication
#disable_xsel Bioroebe::Shell
#discover_all_palindromes Bioroebe::Shell
#discover_the_corresponding_FASTA_entries_from_this_dataset Bioroebe::GenbankParser
#display Bioroebe::ColourSchemeDemo
#display Bioroebe::ProfilePattern
#display_all_aminoacids Bioroebe::Shell
display_all_open_reading_frames_from_this_sequence Bioroebe
#display_an_even_simpler_consensus_sequence Bioroebe::ConsensusSequence
#display_glycolysis_pathway Bioroebe::Shell
#display_grid Bioroebe::Dotplot
#display_modulo_ten_spacer Bioroebe::DisplayOpenReadingFrames
#display_name Bioroebe::Biomart::Dataset
#display_name Bioroebe::Biomart::Filter
#display_name? Bioroebe::Biomart::Database
#display_name? Bioroebe::Biomart::Attribute
#display_nucleotide_sequence Bioroebe::Shell
#display_open_reading_frames Bioroebe::Shell
#display_results Bioroebe::PalindromeFinder
#display_reverse_frame1 Bioroebe::DisplayOpenReadingFrames
#display_reverse_frame2 Bioroebe::DisplayOpenReadingFrames
#display_reverse_frame3 Bioroebe::DisplayOpenReadingFrames
#display_scheme Bioroebe::ColourSchemeDemo
#display_separator Bioroebe::DeduceAminoacidSequence
#display_separator_in_the_middle Bioroebe::DisplayOpenReadingFrames
#display_the_nucleotide_sequence_on_bottom Bioroebe::DisplayOpenReadingFrames
#display_the_nucleotide_sequence_on_top Bioroebe::DisplayOpenReadingFrames
#display_the_three_regular_frames Bioroebe::DisplayOpenReadingFrames
#display_these_two_nucleotides Bioroebe::Palindrome2DStructure
#display_title Bioroebe::ShowThisCodonTable
#display_trailing_connecters Bioroebe::Palindrome2DStructure
#display_with_prior_formatting Bioroebe::ShowNucleotideSequence
#display_x_axis Bioroebe::Dotplot
#display_y_axis Bioroebe::Dotplot
#division? Bioroebe::Taxonomy
#division_id Bioroebe::Taxonomy::Node
#dna_padding Bioroebe::Shell
dna_sequence Bioroebe
#dna_sequence? Bioroebe::GUI::Gtk::NucleotideAnalyser
#dna_sequence? Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#dna_sequence? Bioroebe::DisplayOpenReadingFrames
#dna_sequence? Bioroebe::ConvertAminoacidToDNA
#dna_sequences? Bioroebe::Shell
#dna_string? Bioroebe::CountAmountOfNucleotides
dna_to_aminoacid_sequence Bioroebe
#dna_to_aminoacid_sequence Bioroebe::Shell
#dna_translate Bioroebe::Shell
#dna_with_ends Bioroebe::Shell
#do_a_silent_startup Bioroebe::Shell
#do_action Bioroebe::Shell
#do_actions_past_the_parsing_of_the_input_file Bioroebe::Parser::GFF
#do_all_actions_without_parsing_any_file Bioroebe::Parser::GFF
#do_analyse Bioroebe::GUI::Gtk::Alignment
#do_analyse Bioroebe::GUI::LibUI::Alignment
#do_analyse_the_aminoacid_sequence Bioroebe::GUI::Tk::AminoacidComposition
#do_analyse_the_sequence Bioroebe::GUI::Gtk::NucleotideAnalyser
#do_analyze_sequence Bioroebe::Shell
#do_batch_load_all_gtk3_related_ruby_files Bioroebe::GUI::Gtk::Controller
#do_calculate_the_GC_content_for_the_forward_primer Bioroebe::GUI::Gtk::PrimerDesignWidget
#do_calculate_the_GC_content_for_the_reverse_primer Bioroebe::GUI::Gtk::PrimerDesignWidget
#do_clear_the_list_store Bioroebe::GUI::Gtk::RandomSequence
#do_colourize_the_start_codon Bioroebe::ShowNucleotideSequence
#do_compare Bioroebe::SimpleStringComparer
#do_compare_the_two_sequences Bioroebe::DotAlignment
#do_compare_the_two_strings Bioroebe::GUI::LevenstheinDistanceModule
#do_convert Bioroebe::GUI::Tk::ThreeToOne
#do_convert_the_file Bioroebe::GUI::Gtk::FormatConverter
#do_copy_to_the_clipboard Bioroebe::GUI::Gtk::RandomSequence
#do_create_a_new_fasta_file Bioroebe::GUI::Gtk::AminoacidComposition
#do_cut_the_sequence Bioroebe::RestrictionEnzyme
#do_default_action Bioroebe::Parser::GFF
#do_determine_the_backtrack_sequence Bioroebe::GUI::ProteinToDNAModule
#do_display_additional_information Bioroebe::DisplayAminoacidTable
#do_display_all_available_codon_tables Bioroebe::ShowCodonTables
#do_evaluate_the_sequence Bioroebe::GUI::Gtk::RandomSequence
#do_generate_a_random_sequence Bioroebe::GUI::LibUI::RandomSequence
#do_generate_a_random_sequence Bioroebe::GUI::Gtk::RandomSequence
#do_generate_a_random_sequence_using_the_value_from_the_proper_entry Bioroebe::GUI::LibUI::RandomSequence
#do_generate_a_random_sequence_using_the_value_from_the_proper_entry Bioroebe::GUI::Gtk::RandomSequence
#do_handle_all_CSS_related_aspects Bioroebe::GUI::Gtk::Controller
#do_mutate_dna_sequence_at_this_nucleotide_position Bioroebe::Shell
#do_not_report_anything Bioroebe::ShowNucleotideSequence
#do_not_show_the_leader Bioroebe::Shell
#do_not_show_the_main_sequence Bioroebe::ColourizeSequence
#do_not_show_the_trailer Bioroebe::Shell
#do_not_simplify_purines_and_pyrimidines Bioroebe::PossibleCodonsForThisAminoacid
do_not_truncate Bioroebe
#do_not_truncate Bioroebe::Shell
do_not_use_expand_cd_aliases Bioroebe::Configuration
#do_not_use_working_directory_as_prompt Bioroebe::Shell
#do_open Bioroebe::Shell
#do_open_a_file Bioroebe::GUI::Gtk::Sizeseq
#do_open_a_file_and_then_set_the_correct_values Bioroebe::GUI::Gtk::RandomSequence
#do_open_a_local_FASTA_file Bioroebe::GUI::Gtk::AminoacidComposition
#do_open_a_local_file Bioroebe::GUI::Gtk::FormatConverter
#do_open_a_local_file Bioroebe::GUI::Gtk::NucleotideAnalyser
#do_open_and_assign_a_local_file Bioroebe::GUI::Gtk::Alignment
#do_parse_the_defline Bioroebe::FastaDefline
#do_parse_the_input_file Bioroebe::Parser::GFF
#do_perform_the_alignment Bioroebe::SmithWaterman
#do_pick_a_local_file Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#do_pop_up_the_widget_containing_information_about_primer_design_in_a_PCR Bioroebe::GUI::Gtk::PrimerDesignWidget
#do_populate_the_combo_box Bioroebe::GUI::Gtk::ShowCodonTable
#do_popup_with_this_message Bioroebe::GUI::Gtk::RestrictionEnzymes
#do_process_the_commandline_arguments_that_are_files Bioroebe::ParseFasta
#do_properly_setup_the_tree_view Bioroebe::GUI::Gtk::RandomSequence
#do_properly_space_the_top_left_entry Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#do_quit Bioroebe::Shell
#do_report Bioroebe::Levensthein
#do_report_the_reading_frame Bioroebe::DnaToAminoacidSequence
#do_report_the_sequence Bioroebe::ParseFasta
#do_reset_the_input_sequence Bioroebe::GUI::Gtk::NucleotideAnalyser
#do_run_connected Bioroebe::Taxonomy::Interactive
#do_scan_for_the_main_pattern_in_use Bioroebe::ScanForRepeat
#do_show_a_possible_sequence Bioroebe::DeduceAminoacidSequence
#do_show_as_the_three_letter_aminoacid_sequence Bioroebe::DnaToAminoacidSequence
#do_show_the_header Bioroebe::ParseFasta
#do_show_the_rna_sequence Bioroebe::DeduceAminoacidSequence
#do_show_the_ruler Bioroebe::ShowNucleotideSequence
#do_show_the_two_sequences Bioroebe::FindLongestSubstringViaLCSalgorithm
#do_sort_by_size Bioroebe::ParseFasta
#do_start_the_sinatra_interface Bioroebe::Shell
#do_startup_actions Bioroebe::Taxonomy::Interactive
#do_startup_related_actions Bioroebe::GUI::Gtk::PrimerDesignWidget
#do_store_into_a_local_yaml_file Bioroebe::ParseFrequencyTable
#do_style_all_buttons_in_a_uniform_manner Bioroebe::GUI::Gtk::NucleotideAnalyser
#do_style_all_the_buttons Bioroebe::GUI::AntiSenseStrand
#do_sync_fields Bioroebe::GUI::DnaToReverseComplementWidgetModule
#do_sync_the_combo_box_text_onto_the_text_buffer Bioroebe::GUI::Gtk::BlosumMatrixViewer
#do_sync_the_combo_box_text_onto_the_text_buffer Bioroebe::GUI::LibUI::BlosumMatrixViewer
#do_the_calculation Bioroebe::AlphaHelix
#do_the_calculation Bioroebe::GUI::CalculateCellNumbersOfBacteriaModule
#do_the_conversion Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#do_the_conversion Bioroebe::GUI::ShowCodonUsageModule
#do_the_conversion_step Bioroebe::DnaToAminoacidSequence
#do_the_conversion_then_update_the_label_as_well Bioroebe::GUI::ShowCodonUsageModule
#do_toggle_debug_value Bioroebe::Shell
#do_trigger_a_conversion Bioroebe::GUI::LibUI::DnaToAminoacidWidget
#do_trigger_the_conversion Bioroebe::GUI::LibUI::ThreeToOne
#do_trigger_the_conversion Bioroebe::GUI::Gtk::ThreeToOne
do_truncate Bioroebe
#do_truncate? Bioroebe::Shell
#do_upcase_all_entries Bioroebe::GUI::Gtk::HammingDistance
#do_upcase_the_sequence Bioroebe::CompactFastaFile
#do_upcase_the_sequence? Bioroebe::CompactFastaFile
do_use_expand_cd_aliases Bioroebe::Configuration
#do_use_working_directory_as_prompt Bioroebe::Shell
#does_this_remote_file_exist? Bioroebe::Shell
dotplot_array Bioroebe
down_triangle Bioroebe::SVG::Glyph
#downcase Bioroebe::RawSequence
downcase_chunked_display Bioroebe
#downcase_main_string Bioroebe::Shell
#download Bioroebe::Shell
download Bioroebe
#download Bioroebe::Taxonomy::Interactive
#download_dir? Bioroebe::CommandlineApplication
download_directory? Bioroebe
download_directory? Bioroebe::Taxonomy
#download_fasta Bioroebe::Shell
download_fasta Bioroebe
download_human_genome Bioroebe
#download_location? Bioroebe::DownloadTaxonomyDatabase
#download_ncbi_database Bioroebe::Taxonomy::Interactive
#download_remote_file Bioroebe::DownloadFasta
download_taxonomy_database Bioroebe
download_this_pdb Bioroebe
#download_this_pdb_file Bioroebe::Shell
#draw Bioroebe::SVG::SVGEE
#draw Bioroebe::SVG::Page
#draw_circle Bioroebe::SVG::Page
#draw_directed Bioroebe::SVG::Page
#draw_down_triangle Bioroebe::SVG::Page
#draw_features Bioroebe::SVG::Page
#draw_generic Bioroebe::SVG::Page
#draw_histogram Bioroebe::SVG::Page
#draw_label Bioroebe::SVG::Page
#draw_scale Bioroebe::SVG::Page
#draw_span Bioroebe::SVG::Page
#draw_transcript Bioroebe::SVG::Page
#draw_up_triangle Bioroebe::SVG::Page
#drop_names_table Bioroebe::Taxonomy::Interactive
#drop_nodes_and_names_database_tables Bioroebe::Taxonomy::Interactive
#drop_nodes_table Bioroebe::Taxonomy::Interactive
#drop_table Bioroebe::Taxonomy::Interactive
#dump Bioroebe::Shell
e Bioroebe::Pathways
e Bioroebe::Taxonomy
e Bioroebe::Ncbi
#e Bioroebe::CommandlineArguments
e Bioroebe::MolecularWeightOfNucleotides
e Bioroebe::AminoacidsMassTable
e Bioroebe::Sinatra
e Bioroebe
#each_char Bioroebe::RawSequence
#ecomment Bioroebe::ColoursForBase
#ecomment Bioroebe
#edit Bioroebe::Taxonomy
#edit_distance? Bioroebe::Levensthein
#edit_gemspec Bioroebe::Taxonomy
#edit_instructions Bioroebe::Taxonomy
#edit_login_file Bioroebe::Taxonomy::Shared
#edit_password Bioroebe::Taxonomy
#edit_shared_code_file Bioroebe::Taxonomy
#edit_taxonomy Bioroebe::Taxonomy
editor? Bioroebe
#editor? Bioroebe::CommandlineApplication
#efancy Bioroebe::ColoursForBase
#efetch Bioroebe::Shell
efetch Bioroebe::Ncbi
efetch_by_url Bioroebe::Ncbi
#egold Bioroebe::ColoursForBase
#eliminate_tabulator Bioroebe::Taxonomy::Shared
embeddable_interface Bioroebe
#embeddable_interface? Bioroebe::Sinatra
embeddable_interface? Bioroebe::Sinatra
#embl_code Bioroebe::Taxonomy::Node
#empty? Bioroebe::RawSequence
#enable Bioroebe::Taxonomy::Interactive
#enable Bioroebe::Shell
enable_colours Bioroebe
#enable_colours Bioroebe::Taxonomy::Interactive
#enable_colours Bioroebe::ColoursForBase
#enable_colours Bioroebe::Shell
enable_colours Bioroebe::Taxonomy
#enable_configuration Bioroebe::Shell
#enable_gtk Bioroebe::Shell
#enable_gtk_section_antisensestrand Bioroebe::Shell
#enable_proper_sorting_for_the_list_store Bioroebe::GUI::Gtk::RandomSequence
#enable_warnings Bioroebe::CommandlineApplication
#enable_warnings Bioroebe::GUI
#enable_xsel Bioroebe::Shell
#end Bioroebe::SVG::MiniFeature
#ensure_that_download_dir_exists Bioroebe::Taxonomy::Shared
#ensure_that_temp_dir_exists Bioroebe::Taxonomy::Shared
ensure_that_temp_dir_exists Bioroebe::Taxonomy
#ensure_that_the_base_directories_exist Bioroebe::CommandlineApplication
ensure_that_the_base_directories_exist Bioroebe
#ensure_that_the_bioshell_log_directory_exists Bioroebe::Shell
#enter_base_directory Bioroebe::Shell
#enter_log_directory Bioroebe::DownloadFasta
#enter_main_loop Bioroebe::Shell
#entries? Bioroebe::ParseFasta
#entry1? Bioroebe::GUI::LevenstheinDistanceModule
#entry1? Bioroebe::GUI::Gtk::HammingDistance
#entry2? Bioroebe::GUI::LevenstheinDistanceModule
#entry_for_the_codon_table? Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#entry_for_the_codon_table? Bioroebe::GUI::LibUI::DnaToAminoacidWidget
#entry_id? Bioroebe::FastaDefline
#entry_input_sequence? Bioroebe::GUI::Gtk::NucleotideAnalyser
#eorange Bioroebe::ColoursForBase
#eparse Bioroebe::ColoursForBase
#ereturn Bioroebe::Shell
#erev Bioroebe::ColourizeSequence
erev Bioroebe::AminoacidsMassTable
erev Bioroebe
erev Bioroebe::Sinatra
erev Bioroebe::Pathways
#erev Bioroebe::ColoursForBase
#erev Bioroebe::EmbeddableInterface
#erev Bioroebe::Shell
#establish_the_forward_and_reverse_sequence Bioroebe::GUI::Gtk::PrimerDesignWidget
#esystem Bioroebe::CommandlineApplication
esystem Bioroebe
every_reverse_palindrome_in_this_string Bioroebe
ewarn Bioroebe
#exit_program Bioroebe::Taxonomy::Interactive
#exit_the_shell_how? Bioroebe::Shell
#exons Bioroebe::SVG::MiniFeature
#expanded_middle_padding? Bioroebe::Shell::Help
#expected? Bioroebe::Compseq
#expected_frequency Bioroebe::Compseq
#explain_to_the_user_what_the_asterisk_mean Bioroebe::AdvancedDotplot
#extract Bioroebe::CommandlineApplication
extract Bioroebe
#extract_sequence_from_this_file Bioroebe::Shell
#f? Bioroebe::Shell
#fasta? Bioroebe::Shell
#fasta? Bioroebe::Taxonomy::Info
fasta_dir? Bioroebe
fasta_directory? Bioroebe
#fasta_file? Bioroebe::Shell
#favicon? Bioroebe::GUI::Gtk::WwwFinder
#favicon? Bioroebe::GUI::DnaToReverseComplementWidgetModule
#feature_height Bioroebe::SVG::Track
#feature_rows Bioroebe::SVG::Track
#features Bioroebe::SVG::Track
#feedback_help_then_exit Bioroebe::FastaParser
#feedback_version Bioroebe::Shell
#feedback_where_files_are_kept_locally Bioroebe::Shell
#feedback_whether_we_are_in_debug_mode Bioroebe::Shell
#feedback_whether_we_will_also_set_the_xorg_buffer Bioroebe::Shell
#fetch Bioroebe::GenomeRetriever
fetch_data_from_uniprot Bioroebe
fetch_fasta_sequence_from_pdb Bioroebe
#fetch_from_pdb Bioroebe::Shell
#fetch_input Bioroebe::HelixWheel
#fetch_user_input_via_loop Bioroebe::Taxonomy::Interactive
#file? Bioroebe::ElectronMicroscopy::ReadFileXMD
#file? Bioroebe::ElectronMicroscopy::ParseCoordinates
file_amino_acids Bioroebe
file_amino_acids_abbreviations Bioroebe
file_amino_acids_frequency Bioroebe
file_amino_acids_long_name_to_one_letter Bioroebe
#file_dna_string_saved? Bioroebe::Shell
file_fastq_quality_schemes Bioroebe
#file_is_stored_here? Bioroebe::DownloadFasta
file_molecular_weight Bioroebe
#file_or_files Bioroebe::AnalyseLocalDataset
#file_readlines Bioroebe::Base
file_restriction_enzymes Bioroebe
#file_restriction_enzymes Bioroebe
file_statistics? Bioroebe
file_talens Bioroebe
#filename Bioroebe::Taxonomy::Info
#filesize Bioroebe::Taxonomy::ParseFasta
#fill_the_table_data_with_this_sequence Bioroebe::GUI::Gtk::AminoacidComposition
#fill_with_this Bioroebe::GUI::Gtk::FormatConverter
filter_away_invalid_aminoacids Bioroebe
#filter_away_invalid_aminoacids_from_the_left_buffer Bioroebe::GUI::ProteinToDNAModule
filter_away_invalid_nucleotides Bioroebe
#filters? Bioroebe::Biomart::Dataset
#final_sequence? Bioroebe::MostLikelyNucleotideSequenceForThisAminoacidSequence
#find_all_orfs Bioroebe::Shell
#find_all_unique_accession_ids Bioroebe::Parser::GFF
#find_complementary_nucleotide_to Bioroebe::PalindromeGenerator
#find_complementary_strand Bioroebe::Shell
#find_complex_palindromes Bioroebe::PalindromeFinder
#find_gene Bioroebe::Shell
#find_highest_entries_in_sql Bioroebe::Taxonomy
#find_kdel_sequence Bioroebe::Shell
#find_longest_substring Bioroebe::Shell
#find_longest_substring_via_LCS Bioroebe::Shell
#find_parent_of Bioroebe::Taxonomy::Chart
#find_possible_nucleotide_matches_for_this_codon Bioroebe::ConvertAminoacidToDNA
#find_restriction_enzymes_that_cut_at Bioroebe::Shell
#find_restriction_sites Bioroebe::Shell
#find_seeds Bioroebe::PalindromeFinder
#find_shine_dalgarno_sequence Bioroebe::Shell
#find_simple_palindromes Bioroebe::PalindromeFinder
find_substring Bioroebe
#find_substring_indices Bioroebe::RawSequence
#finished Bioroebe::Taxonomy::Interactive
#first Bioroebe::Shell
#first? Bioroebe::ParseFrequencyTable
#first? Bioroebe::CommandlineArguments
#first_argument? Bioroebe::GUI::Tk::ThreeToOne
#first_argument? Bioroebe::GUI::Tk::AminoacidComposition
#first_argument? Bioroebe::GUI::Tk::BlosumMatrixViewer
#first_argument? Bioroebe::Taxonomy::Interactive
#first_key? Bioroebe::ParseFasta
#first_non_hyphen_argument? Bioroebe::CommandlineArguments
#first_position= Bioroebe::RawSequence
#first_row_of_the_codons_to_use? Bioroebe::DeduceAminoacidSequence
#first_value Bioroebe::ParseFasta
#focus Bioroebe::GUI::AntiSenseStrand
#focus_entry Bioroebe::GUI::Gtk::WwwFinder
#focus_on_tab Bioroebe::GUI::Gtk::Controller
#format_this_nucleotide_sequence Bioroebe::Shell
#format_this_nucleotide_sequence Bioroebe::ShowNucleotideSequence
format_this_nucleotide_sequence Bioroebe
#forward_strand? Bioroebe::PalindromeGenerator
#frame1? Bioroebe::DisplayOpenReadingFrames
#frame2? Bioroebe::DisplayOpenReadingFrames
#frame3? Bioroebe::DisplayOpenReadingFrames
#frame4? Bioroebe::DisplayOpenReadingFrames
#frame5? Bioroebe::DisplayOpenReadingFrames
#frame6? Bioroebe::DisplayOpenReadingFrames
#frame_1? Bioroebe::ShowOrf
#frame_2? Bioroebe::ShowOrf
#frame_3? Bioroebe::ShowOrf
#freeze Bioroebe::RawSequence
#freeze_the_main_sequence Bioroebe::Shell
frequency_per_thousand Bioroebe
from_json Bioroebe::SVG::Page
#gap_cost? Bioroebe::Levensthein
gc_content Bioroebe
#gc_content? Bioroebe::ParseFasta
#gc_content_in_percent? Bioroebe::CalculateGCContent
gc_percentage Bioroebe::CalculateGCContent
#gc_percentage Bioroebe::NucleotideModule
#gc_percentage? Bioroebe::DNA
#genbank_hidden_flag Bioroebe::Taxonomy::Node
genbank_to_fasta Bioroebe
#gencode? Bioroebe::Taxonomy
#generate Bioroebe::Taxonomy::Interactive
generate_HTML_page_via_this_input Bioroebe::Colourize
#generate_a_report Bioroebe::ElectronMicroscopy::CoordinateAnalyzer
#generate_html_links_for Bioroebe::Taxonomy
generate_nucleotide_sequence_based_on_these_frequencies Bioroebe
#generate_palindrome Bioroebe::Shell
#generate_pdf_tutorial Bioroebe::Shell
generate_pdf_tutorial Bioroebe::Shell
generate_pdf_tutorial Bioroebe
generate_random_dna_sequence Bioroebe
#generate_random_dna_sequence_with_variable_length_and_variable_composition Bioroebe::Shell
#generate_random_protein_sequence_with_variable_length_and_variable_composition Bioroebe::Shell
generate_random_rna_sequence Bioroebe
#generate_sequence_based_on_this_profile Bioroebe::ProfilePattern
#generate_single_sequence_repeats Bioroebe::Shell
#generate_xml Bioroebe::Biomart::Dataset
generic Bioroebe::SVG::Glyph
#genetic_code_id Bioroebe::Taxonomy::Node
#genome? Bioroebe::GenomePattern
#get Bioroebe::Taxonomy::Interactive
#get_all_image_directories Bioroebe::ElectronMicroscopy::CoordinateAnalyzer
#get_all_info_entries_with_tax_id Bioroebe::Taxonomy::Interactive
#get_id_of Bioroebe::Taxonomy
#get_limits Bioroebe::SVG::Page
#get_long_name_of_amino_acid Bioroebe::Shell
#get_markup Bioroebe::SVG::Page
#get_parent_id_of Bioroebe::Taxonomy
#get_rows Bioroebe::SVG::Track
#get_scientific_name_of Bioroebe::Taxonomy
#get_user_input Bioroebe::Taxonomy::Interactive
#get_user_input Bioroebe::CheckForMismatches
#gi? Bioroebe::FastaDefline
glycolysis_pathway Bioroebe::Pathways
#glyph Bioroebe::SVG::Track
#glyphs Bioroebe::SVG::Glyph
#grab_dataset Bioroebe::ElectronMicroscopy::ParseCoordinates
#gradient Bioroebe::SVG::SVGEE
gradient Bioroebe::SVG::Glyph
gradients Bioroebe::SVG::Glyph
#green Bioroebe::ShowThisCodonTable
#gsub Bioroebe::RawSequence
#gsub! Bioroebe::RawSequence
#guanin? Bioroebe::Shell
guess_format Bioroebe
#guess_from_this_input Bioroebe::SimpleStringComparer
hamming_distance Bioroebe
#handle_CSS Bioroebe::GUI::Gtk::ShowCodonTable
#handle_CSS Bioroebe::GUI::Gtk::RandomSequence
#handle_CSS_rules Bioroebe::GUI::Gtk::ThreeToOne
#handle_CSS_rules Bioroebe::GUI::Gtk::NucleotideAnalyser
#handle_CSS_rules Bioroebe::GUI::Gtk::DnaToReverseComplementWidget
#handle_CSS_rules Bioroebe::GUI::Gtk::AminoacidComposition
#handle_CSS_rules Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#handle_CSS_rules Bioroebe::GUI::Gtk::FastaTableWidget
#handle_CSS_rules Bioroebe::GUI::Gtk::CalculateCellNumbersOfBacteria
#handle_CSS_rules Bioroebe::GUI::Gtk::BlosumMatrixViewer
#handle_commandline_arguments Bioroebe::GUI::DnaToReverseComplementWidgetModule
#handle_fasta Bioroebe::Shell
#handle_given_commandline_input Bioroebe::CheckForMismatches
#handle_pdb_files Bioroebe::Shell
#handle_sense Bioroebe::GUI::AntiSenseStrand
#handle_the_commandline_arguments Bioroebe::GUI::ShowCodonUsageModule
#handle_this_file Bioroebe::Shell
#has_id? Bioroebe::Taxonomy::Interactive
#has_more_than_one_accession_ids? Bioroebe::Parser::GFF
#has_only_nucleotides? Bioroebe::SplitThisFastaFileIntoChromosomes
#has_stop_codon? Bioroebe::NucleotideModule
has_this_restriction_enzyme? Bioroebe
#hash Bioroebe::Taxonomy::Chart
hash Bioroebe::MolecularWeightOfNucleotides
#hash? Bioroebe::ParseFasta
#hash? Bioroebe::CountAmountOfAminoacids
#hash? Bioroebe::Taxonomy::ParseFasta
#hash? Bioroebe::ShowCodonUsage
#hash? Bioroebe::Compseq
hash_codon_tables? Bioroebe
#hash_codon_to_aminoacid? Bioroebe::ConvertAminoacidToDNA
#header? Bioroebe::ElectronMicroscopy::ReadFileXMD
#header? Bioroebe::ParseFasta
#header? Bioroebe::ParsePdbFile
#header_bar? Bioroebe::GUI::Gtk::Controller
#headers? Bioroebe::ParseFasta
#hidden? Bioroebe::Biomart::Filter
#hidden? Bioroebe::Biomart::Attribute
#hidden_subtree_root_flag Bioroebe::Taxonomy::Node
#highlight_colour? Bioroebe::Shell
#hor_bar Bioroebe::ShowOrf
human_codon_table? Bioroebe::CodonTables
#hydrophobic_amino_acids? Bioroebe::Protein
#id Bioroebe::SVG::MiniFeature
#id= Bioroebe::ParseTaxonomy
#id? Bioroebe::ParseTaxonomy
#identifier? Bioroebe::Compseq
#identify_aminoacid Bioroebe::Shell
#include? Bioroebe::Shell
#include? Bioroebe::RawSequence
#increase_indent_level Bioroebe::Dotplot
#increment_n_gaps_by Bioroebe::Levensthein
#increment_n_matches_by Bioroebe::Levensthein
#increment_n_mismatches_by Bioroebe::Levensthein
#index Bioroebe::Sequence
#index_this_fasta_file Bioroebe::Shell
index_this_fasta_file Bioroebe
#indices? Bioroebe::RGG_Scanner
#indices_as_string? Bioroebe::RGG_Scanner
#infer_the_namespace Bioroebe::Base
#infer_type Bioroebe::Sequence
infer_type_from_this_sequence Bioroebe
#info_dir? Bioroebe::Taxonomy::Constants
#inherited_div_flag Bioroebe::Taxonomy::Node
#inherited_gc_flag Bioroebe::Taxonomy::Node
#inherited_mgc_flag Bioroebe::Taxonomy::Node
#initial_padding_to_use? Bioroebe::Levensthein
#initialize Bioroebe::RestrictionEnzyme
#initialize Bioroebe::GUI::LibUI::ShowCodonUsage
#initialize Bioroebe::GUI::LibUI::HammingDistance
#initialize Bioroebe::Permutations
#initialize Bioroebe::GUI::LibUI::Alignment
#initialize Bioroebe::FastaToYaml
#initialize Bioroebe::FastaDefline
#initialize Bioroebe::PhredQualityScoreTable
#initialize Bioroebe::DownloadFilesFromRebase
#initialize Bioroebe::ParseFrequencyTable
#initialize Bioroebe::PalindromeFinder
#initialize Bioroebe::AlphaHelix
#initialize Bioroebe::Taxonomy::CheckAvailable
#initialize Bioroebe::StrideParser
#initialize Bioroebe::DotAlignment
#initialize Bioroebe::ElectronMicroscopy::SimpleStarFileGenerator
#initialize Bioroebe::GUI::Gtk::FastaTableWidget
#initialize Bioroebe::GUI::Gtk::ShowCodonUsage
#initialize Bioroebe::GUI::Gtk::ShowCodonTable
#initialize Bioroebe::MirrorRepeat
#initialize Bioroebe::LengthModifier
#initialize Bioroebe::GUI::Gtk::CustomizedDialog
#initialize Bioroebe::GUI::Gtk::NucleotideAnalyser
#initialize Bioroebe::BlosumParser
#initialize Bioroebe::GUI::Gtk::HammingDistance
#initialize Bioroebe::Punnet
#initialize Bioroebe::GUI::Gtk::RestrictionEnzymes
#initialize Bioroebe::GenomePattern
#initialize Bioroebe::ShowHydrophobicity
#initialize Bioroebe::GUI::Gtk::FormatConverter
#initialize Bioroebe::GUI::Tk::BlosumMatrixViewer
#initialize Bioroebe::GenbankFlatFileFormatGenerator
#initialize Bioroebe::CalculateGCContent
#initialize Bioroebe::DetermineAntigenicAreas
#initialize Bioroebe::AlignOpenReadingFrames
#initialize Bioroebe::GUI::LibUI::RandomSequence
#initialize Bioroebe::DownloadFasta
#initialize Bioroebe::GUI::Tk::LevenstheinDistance
#initialize Bioroebe::BiolangParser
#initialize Bioroebe::ColourSchemeDemo
#initialize Bioroebe::GUI::Gtk::Alignment
#initialize Bioroebe::GUI::Gtk::Controller
#initialize Bioroebe::FastaParser
#initialize Bioroebe::PossibleCodonsForThisAminoacid
#initialize Bioroebe::CreateBatchEntrezFile
#initialize Bioroebe::Taxonomy::ParseFasta
#initialize Bioroebe::SanitizeNucleotideSequence
#initialize Bioroebe::GenbankParser
#initialize Bioroebe::GUI::Tk::HammingDistance
#initialize Bioroebe::SiRNA
#initialize Bioroebe::DNA
#initialize Bioroebe::GUI::Gtk::RandomSequence
#initialize Bioroebe::GUI::LibUI::ProteinToDNA
#initialize Bioroebe::ParseFastq
#initialize Bioroebe::Genome
#initialize Bioroebe::SVG::Primitive
#initialize Bioroebe::GUI::Gtk::WwwFinder
#initialize Bioroebe::Taxonomy::Node
#initialize Bioroebe::MoveFileToItsCorrectLocation
#initialize Bioroebe::ParseFasta
#initialize Bioroebe::ElectronMicroscopy::GenerateEm2emFile
#initialize Bioroebe::GUI::Gtk::BlosumMatrixViewer
#initialize Bioroebe::Biomart::Filter
#initialize Bioroebe::ElectronMicroscopy::CoordinateAnalyzer
#initialize Bioroebe::ShowThisCodonTable
#initialize Bioroebe::GUI::Gtk::LevenstheinDistance
#initialize Bioroebe::GUI::Gtk::PrimerDesignWidget
#initialize Bioroebe::CalculateMeltingTemperature
#initialize Bioroebe::GUI::Tk::AminoacidComposition
#initialize Bioroebe::Biomart::Server
#initialize Bioroebe::ShowThisDNASequence
#initialize Bioroebe::ReportSecondaryStructuresFromThisPdbFile
#initialize Bioroebe::SmithWaterman
#initialize Bioroebe::GUI::Jruby::BlosumMatrixViewer
#initialize Bioroebe::ShowCodonUsage
#initialize Bioroebe::GUI::LibUI::BlosumMatrixViewer
#initialize Bioroebe::Taxonomy::Chart
#initialize Bioroebe::Matrix
#initialize Bioroebe::SimpleStringComparer
#initialize Bioroebe::GUI::LibUI::LevenstheinDistance
#initialize Bioroebe::FindLongestSubstring
#initialize Bioroebe::ParseTaxonomy
#initialize Bioroebe::DetermineOptimalCodons
#initialize Bioroebe::GUI::Gtk::AminoacidComposition
#initialize Bioroebe::Base
#initialize Bioroebe::SanitizeCodonFrequency
#initialize Bioroebe::Biomart::BiomartError
#initialize Bioroebe::AnalyseGlycosylationPattern
#initialize Bioroebe::Levensthein
#initialize Bioroebe::Biomart::Dataset
#initialize Bioroebe::GUI::Gtk::ProteinToDNA
#initialize Bioroebe::GUI::Gtk::ParsePdbFile
#initialize Bioroebe::CompactFastaFile
#initialize Bioroebe::FastqFormatExplainer
#initialize Bioroebe::DisplayOpenReadingFrames
#initialize Bioroebe::AutocorrectTheNameOfThisFastaFile
#initialize Bioroebe::ShowCodonTables
#initialize Bioroebe::ReverseComplement
#initialize Bioroebe::GUI::AntiSenseStrand
#initialize Bioroebe::MatplotlibGenerator
#initialize Bioroebe::Biomart::Database
#initialize Bioroebe::CalculateThePositionSpecificScoringMatrix
#initialize Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#initialize Bioroebe::Dotplot
#initialize Bioroebe::AnalyseLocalDataset
#initialize Bioroebe::GenomeRetriever
#initialize Bioroebe::HelixWheel
#initialize Bioroebe::ShowFastaStatistics
#initialize Bioroebe::Protein
#initialize Bioroebe::DetectMinimalCodon
#initialize Bioroebe::GUI::Gtk::Sizeseq
#initialize Bioroebe::Compseq
#initialize Bioroebe::ElectronMicroscopy::ParseCoordinates
#initialize Bioroebe::FindLongestSubstringViaLCSalgorithm
#initialize Bioroebe::Taxonomy::Interactive
#initialize Bioroebe::DetermineMissingNucleotidesPercentage
#initialize Bioroebe::GUI::LibUI::DnaToAminoacidWidget
#initialize Bioroebe::Shell::Help
#initialize Bioroebe::CheckForMismatches
#initialize Bioroebe::DnaToAminoacidSequence
#initialize Bioroebe::CodonPercentage
#initialize Bioroebe::SVG::MiniFeature
#initialize Bioroebe::ProfilePattern
#initialize Bioroebe::ColourizeHydrophilicAndHydrophobicAminoacids
#initialize Bioroebe::Taxonomy::IsDNA
#initialize Bioroebe::SimplifyFastaHeader
#initialize Bioroebe::Shell
#initialize Bioroebe::Biomart::Attribute
#initialize Bioroebe::ParsemmCIFFile
#initialize Bioroebe::ShowNucleotideSequence
#initialize Bioroebe::Parser::GFF
#initialize Bioroebe::ScanForRepeat
#initialize Bioroebe::GUI::LibUI::ShowCodonTable
#initialize Bioroebe::Sequence
#initialize Bioroebe::ComplementaryDnaStrand
#initialize Bioroebe::DisplayHowManyFastaEntriesAreInThisDirectory
#initialize Bioroebe::DownloadTaxonomyDatabase
#initialize Bioroebe::MostLikelyNucleotideSequenceForThisAminoacidSequence
#initialize Bioroebe::ConvertAminoacidToDNA
#initialize Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#initialize Bioroebe::ColourizeSequence
#initialize Bioroebe::RGG_Scanner
#initialize Bioroebe::CreateAnnotationFormat
#initialize Bioroebe::Ruler
#initialize Bioroebe::GUI::Gtk::DnaToReverseComplementWidget
#initialize Bioroebe::DeduceAminoacidSequence
#initialize Bioroebe::RNALfoldWrapper
#initialize Bioroebe::UsefulFormulas
#initialize Bioroebe::SVG::Track
#initialize Bioroebe::Palindrome2DStructure
#initialize Bioroebe::Pathways
#initialize Bioroebe::AminoacidsMassTable
#initialize Bioroebe::CalculateBlosumScore
#initialize Bioroebe::CountAmountOfAminoacids
#initialize Bioroebe::Sinatra
#initialize Bioroebe::FindGene
#initialize Bioroebe::Compacter
#initialize Bioroebe::Quiz::ThreeLetterToAminoacid
#initialize Bioroebe::GUI::LibUI::DnaToReverseComplementWidget
#initialize Bioroebe::GUI::LibUI::ThreeToOne
#initialize Bioroebe::GUI::Gtk::CalculateCellNumbersOfBacteria
#initialize Bioroebe::GUI::Gtk::Gene
#initialize Bioroebe::ElectronMicroscopy::FixPosFile
#initialize Bioroebe::SVG::SVGEE
#initialize Bioroebe::ShowRestrictionEnzymes
#initialize Bioroebe::CreateRandomAminoacids
#initialize Bioroebe::ShowOrf
#initialize Bioroebe::ParseEMBL
#initialize Bioroebe::GUI::LibUI::CalculateCellNumbersOfBacteria
#initialize Bioroebe::ParsePdbFile
#initialize Bioroebe::GUI::Tk::ThreeToOne
#initialize Bioroebe::ConsensusSequence
#initialize Bioroebe::GUI::Gtk::ThreeToOne
#initialize Bioroebe::PalindromeGenerator
#initialize Bioroebe::GUI::Gtk::Snapgene
#initialize Bioroebe::ShowFastaHeaders
#initialize Bioroebe::HammingDistance
#initialize Bioroebe::Ncbi
#initialize Bioroebe::Gene
#initialize Bioroebe::DisplayAminoacidTable
#initialize Bioroebe::Cell
#initialize Bioroebe::FetchFastaSequenceFromPdb
#initialize Bioroebe::SplitThisFastaFileIntoChromosomes
#initialize Bioroebe::ElectronMicroscopy::ReadFileXMD
#initialize Bioroebe::RawSequence
#initialize Bioroebe::ElectronMicroscopy::FlipY
#initialize Bioroebe::CountAmountOfNucleotides
#initialize Bioroebe::Alignment
#initialize Bioroebe::AminoacidSubstitution
#initialize Bioroebe::AdvancedDotplot
#initialize Bioroebe::Taxonomy::Info
#initialize Bioroebe::Trypsin
#initialize Bioroebe::SVG::Page
#initialize_clipboard Bioroebe::Shell
initialize_codons Bioroebe
#initialize_dataset_based_on_the_main_sequence_and_create_the_associated_widgets Bioroebe::GUI::Gtk::NucleotideAnalyser
initialize_default_stop_codons Bioroebe
#initialize_main_sequence Bioroebe::Shell
#inner_strip Bioroebe::ShowOrf
#input? Bioroebe::ShowThisDNASequence
#input? Bioroebe::Compacter
#input? Bioroebe::DetermineMissingNucleotidesPercentage
#input? Bioroebe::CountAmountOfAminoacids
#input? Bioroebe::Compseq
#input? Bioroebe::AlignOpenReadingFrames
#input? Bioroebe::GenbankFlatFileFormatGenerator
#input? Bioroebe::HammingDistance
#input? Bioroebe::PossibleCodonsForThisAminoacid
#input? Bioroebe::CreateAnnotationFormat
#input? Bioroebe::SanitizeNucleotideSequence
#input? Bioroebe::CreateBatchEntrezFile
#input? Bioroebe::DetectMinimalCodon
#input? Bioroebe::Quiz::ThreeLetterToAminoacid
#input? Bioroebe::DetermineAntigenicAreas
#input? Bioroebe::SanitizeCodonFrequency
#input? Bioroebe::ShowHydrophobicity
#input? Bioroebe::ShowCodonUsage
#input? Bioroebe::ShowFastaHeaders
#input? Bioroebe::Ncbi
#input? Bioroebe::GUI::DnaToReverseComplementWidgetModule
#input? Bioroebe::FindGene
#input? Bioroebe::DisplayAminoacidTable
input_as_dna Bioroebe
#input_field_for_gap_cost? Bioroebe::GUI::LevenstheinDistanceModule
#input_file? Bioroebe::Parser::GFF
#input_sequence? Bioroebe::ParsePdbFile
#input_sequence? Bioroebe::ShowOrf
#input_sequences? Bioroebe::ConsensusSequence
#input_without_extension Bioroebe::ShowFastaHeaders
#insert_at_this_position Bioroebe::RawSequence
#insert_into Bioroebe::Taxonomy::Interactive
#inspect Bioroebe::Matrix
#install Bioroebe::Shell
#instantiate_a_new_levensthein_object Bioroebe::GUI::LevenstheinDistanceModule
interactive Bioroebe::Taxonomy
#interactive_colour_menu Bioroebe::Shell
#interactive_use_of_levensthein Bioroebe::Shell
#interactively_pick_colour Bioroebe::Shell
#is_DNA? Bioroebe::Sequence
#is_RNA? Bioroebe::Sequence
#is_a_protein? Bioroebe::Sequence
#is_a_protein_now Bioroebe::Sequence
is_a_purine? Bioroebe
is_a_pyrimidine? Bioroebe
#is_a_registered_compound? Bioroebe::Shell
#is_a_stop_codon? Bioroebe::Shell
is_a_stop_codon? Bioroebe
is_an_aminoacid? Bioroebe
#is_any_nucleotide_assigned? Bioroebe::Shell
#is_dna? Bioroebe::Shell
#is_dna? Bioroebe::Taxonomy::IsDNA
#is_first_codon? Bioroebe::ConvertAminoacidToDNA
#is_glycosylated? Bioroebe::Protein
is_in_the_three_letter_code? Bioroebe
#is_it_dna_or_protein? Bioroebe::Taxonomy::ParseFasta
#is_on_roebe? Bioroebe
is_on_roebe? Bioroebe
#is_on_roebe? Bioroebe::Base
#is_palindrome? Bioroebe::Base
is_palindrome? Bioroebe
#is_palindrome? Bioroebe::Shell
#is_polynucleotide? Bioroebe::ParseFasta
#is_purin? Bioroebe::PossibleCodonsForThisAminoacid
#is_pyrimidin? Bioroebe::PossibleCodonsForThisAminoacid
is_reverse_complement? Bioroebe
is_start_codon? Bioroebe
#is_the_main_sequence_frozen? Bioroebe::Shell
#is_the_sequence_a_polypeptide? Bioroebe::ParseFasta
#is_this_a_cd_alias? Bioroebe::Shell
#is_this_a_start_codon? Bioroebe::CommandlineApplication
#is_this_a_stop_codon? Bioroebe::CommandlineApplication
is_this_a_valid_codon? Bioroebe
#is_this_a_valid_codon? Bioroebe::Shell
#is_this_codon_table_available? Bioroebe::ShowThisCodonTable
is_this_sequence_a_EGF2_pattern? Bioroebe
#is_this_sequence_a_polynucleotide_sequence? Bioroebe::ParseFasta
#iterate_over_the_sequences Bioroebe::ConsensusSequence
#keywords? Bioroebe::ParsePdbFile
label Bioroebe::SVG::Glyph
#label? Bioroebe::SVG::Track
#last_inputted_command? Bioroebe::Shell
#last_line? Bioroebe::SplitThisFastaFileIntoChromosomes
#last_line_is_empty? Bioroebe::SplitThisFastaFileIntoChromosomes
last_updated? Bioroebe
#leading_3_prime Bioroebe::Shell
#leading_5_prime Bioroebe::Shell
leading_five_prime Bioroebe
#leading_five_prime Bioroebe::CommandlineApplication
#leading_three_prime Bioroebe::ShowThisDNASequence
#left_buffer? Bioroebe::GUI::ProteinToDNAModule
#left_chop Bioroebe::Shell
#left_entry? Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#left_pad Bioroebe::ShowThisCodonTable
#left_pad_this_index Bioroebe::ReportSecondaryStructuresFromThisPdbFile
#left_padding? Bioroebe::Shell::Help
#left_padding? Bioroebe::DisplayOpenReadingFrames
length? Bioroebe::AlphaHelix
#length? Bioroebe::CalculateMeltingTemperature
length_modifier Bioroebe
#length_of_the_palindrome? Bioroebe::PalindromeGenerator
#let_the_fist_entry_respond_to_on_changed_events Bioroebe::GUI::LevenstheinDistanceModule
#let_the_left_entry_react_to_enter_events Bioroebe::GUI::DnaToReverseComplementWidgetModule
levenshtein_distance Bioroebe
#levensthein_object? Bioroebe::GUI::LevenstheinDistanceModule
#line Bioroebe::Punnet
#list Bioroebe::Shell
#list_attributes Bioroebe::Biomart::Dataset
#list_databases Bioroebe::Biomart::Server
#list_datasets Bioroebe::Biomart::Server
#list_datasets Bioroebe::Biomart::Database
#list_filters Bioroebe::Biomart::Dataset
#list_store? Bioroebe::GUI::Gtk::FastaTableWidget
load Bioroebe::Taxonomy
#load Bioroebe::Shell
load_and_return_the_restriction_enzymes Bioroebe
#load_bioroebe_yaml_file Bioroebe::CommandlineApplication
#load_dna Bioroebe::Shell
#load_from_info Bioroebe::Taxonomy::Interactive
#load_gtk Bioroebe::Shell
#load_gtk3_component_aminoacid_composition Bioroebe::Shell
#load_my_file Bioroebe::Shell
load_psych_or_syck Bioroebe
load_the_codon_table_dataset Bioroebe
#load_yaml_file Bioroebe::GUI::Gtk::RestrictionEnzymes
localhost_to_use? Bioroebe::EmbeddableInterface
#location Bioroebe::Taxonomy::Info
#location? Bioroebe::BiolangParser
#location? Bioroebe::Taxonomy::ParseFasta
#log10 Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#log_dir? Bioroebe::GUI
#log_directory? Bioroebe::CommandlineApplication
log_directory? Bioroebe
log_user_input? Bioroebe::Configuration
#log_user_input? Bioroebe::Shell
longest_common_substring Bioroebe
#lpad Bioroebe::ShowThisCodonTable
#lpad? Bioroebe::ShowThisCodonTable
#lpad? Bioroebe::PalindromeGenerator
#lpad_on Bioroebe::ShowThisCodonTable
#lupdate Bioroebe::Taxonomy::Interactive
#m Bioroebe::SmithWaterman
#main_colour Bioroebe::Shell
#main_dna_sequence? Bioroebe::GUI::Gtk::Controller
#main_encoding? Bioroebe::Base
#main_entry? Bioroebe::GUI::Gtk::FormatConverter
#main_file? Bioroebe::ParsePdbFile
#main_file? Bioroebe::SplitThisFastaFileIntoChromosomes
#main_file? Bioroebe::StrideParser
#main_font? Bioroebe::GUI::Gtk::AminoacidComposition
#main_font? Bioroebe::GUI::Gtk::BlosumMatrixViewer
#main_font? Bioroebe::GUI::Gtk::FastaTableWidget
#main_label? Bioroebe::GUI::Gtk::PrimerDesignWidget
#main_sequence? Bioroebe::Ruler
#main_sequence? Bioroebe::ParseFasta
#main_table Bioroebe::ShowHydrophobicity
#main_url? Bioroebe::Ncbi
#make_taxonomy_gem Bioroebe::Taxonomy::Interactive
#map Bioroebe::Sequence
#map_each_aminoacid_to_an_array_of_corresponding_codons Bioroebe::DeduceAminoacidSequence
map_ncbi_entry_to_eutils_id Bioroebe
#mass_weight Bioroebe::Shell
#mat Bioroebe::SmithWaterman
#match? Bioroebe::AdvancedDotplot
#match_cost? Bioroebe::Levensthein
#match_or_no_match_for Bioroebe::SimpleStringComparer
#match_token? Bioroebe::SimpleStringComparer
max Bioroebe::ColourScheme::Score
#max_allowed_size_per_line Bioroebe::ShowOrf
#max_distance? Bioroebe::ParsePdbFile
#max_y Bioroebe::SVG::Track
#may_we_show_the_startup_information? Bioroebe::Shell
#mediumturquoise_1_to_10 Bioroebe::Digestion
#menu Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#menu Bioroebe::ShowOrf
#menu Bioroebe::CountAmountOfNucleotides
#menu Bioroebe::DisplayOpenReadingFrames
#menu Bioroebe::GUI::Gtk::AminoacidComposition
#menu Bioroebe::Levensthein
#menu Bioroebe::ParsePdbFile
#menu Bioroebe::ShowNucleotideSequence
#menu Bioroebe::ElectronMicroscopy::FlipY
#menu Bioroebe::Taxonomy::Interactive
#menu Bioroebe::ComplementaryDnaStrand
#menu Bioroebe::GUI::Gtk::FormatConverter
#menu Bioroebe::ParseFasta
#menu Bioroebe::MirrorRepeat
#menu Bioroebe::CalculateThePositionSpecificScoringMatrix
#menu Bioroebe::Shell
#menu Bioroebe::DnaToAminoacidSequence
#menu Bioroebe::ShowThisCodonTable
#menu Bioroebe::GUI::ProteinToDNAModule
#menu Bioroebe::RNALfoldWrapper
#menu Bioroebe::ShowCodonUsage
#menu Bioroebe::Punnet
#menu Bioroebe::CompactFastaFile
#menu Bioroebe::ProfilePattern
#menu Bioroebe::DeduceAminoacidSequence
menu Bioroebe::Shell
#menu Bioroebe::ShowFastaStatistics
#menu Bioroebe::Compseq
#menu Bioroebe::CreateRandomAminoacids
#menu Bioroebe::GenbankParser
#menu Bioroebe::AnalyseGlycosylationPattern
#menu Bioroebe::GUI::Gtk::FastaTableWidget
#menu Bioroebe::ParseFrequencyTable
#menu Bioroebe::SplitThisFastaFileIntoChromosomes
#merged? Bioroebe::Taxonomy
#method_codon_frequency_of_this_string Bioroebe::EmbeddableInterface
#method_codon_frequency_per_thousand Bioroebe::EmbeddableInterface
#method_random_aminoacids Bioroebe::EmbeddableInterface
#method_reverse_complement Bioroebe::EmbeddableInterface
#method_shuffleseq Bioroebe::EmbeddableInterface
#middle_padding? Bioroebe::Shell::Help
min Bioroebe::ColourScheme::Score
min3 Bioroebe
#min_width? Bioroebe::SVG::Track
#mirror_repeat Bioroebe::Shell
mirror_repeat_of Bioroebe
#mismatch_cost? Bioroebe::Levensthein
#mitochondrial_genetic_code_id Bioroebe::Taxonomy::Node
#mkdir Bioroebe::Taxonomy::Shared
mkdir Bioroebe
#mkdir Bioroebe::Base
#mkdir Bioroebe
#mode? Bioroebe::Shell
#mode? Bioroebe::GUI::Gtk::RandomSequence
#modification_time Bioroebe::Taxonomy::ParseFasta
#modify_sequence Bioroebe::ColourizeSequence
#molecular_mass_of Bioroebe::Shell
#molecular_mass_of_amino_acids_in_the_sequence Bioroebe::Shell
#move_file Bioroebe::Base
move_file Bioroebe
#move_file_to_its_correct_location Bioroebe::Shell
move_file_to_its_correct_location Bioroebe
#move_this_file_to_its_correct_location Bioroebe::MoveFileToItsCorrectLocation
#multiple_values? Bioroebe::Biomart::Filter
#mutate_aminoacid_position Bioroebe::Shell
#mutate_dna_sequence Bioroebe::Shell
#mutate_position Bioroebe::Shell
#mv Bioroebe::Base
mv Bioroebe
#n Bioroebe::SmithWaterman
#n_A? Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#n_C? Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#n_G? Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#n_T? Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#n_a Bioroebe::CountAmountOfNucleotides
#n_adenines? Bioroebe::GenbankFlatFileFormatGenerator
#n_alpha_helices? Bioroebe::ParsePdbFile
#n_aminoacids? Bioroebe::DeduceAminoacidSequence
#n_aminoacids? Bioroebe::GUI::LibUI::RandomSequence
#n_aminoacids? Bioroebe::GUI::Gtk::RandomSequence
#n_aminoacids? Bioroebe::ParsePdbFile
#n_aminoacids? Bioroebe::CountAmountOfAminoacids
#n_aminoacids_in_the_sequence? Bioroebe::DisplayAminoacidTable
#n_aminoacids_in_total? Bioroebe::CountAmountOfAminoacids
#n_atoms? Bioroebe::ParsePdbFile
#n_c Bioroebe::CountAmountOfNucleotides
n_chunks? Bioroebe::Configuration
#n_cytosines? Bioroebe::GenbankFlatFileFormatGenerator
#n_differences? Bioroebe::HammingDistance
#n_entries Bioroebe::Taxonomy::ParseFasta
#n_entries Bioroebe::Taxonomy::IsDNA
#n_g Bioroebe::CountAmountOfNucleotides
#n_gaps? Bioroebe::Levensthein
#n_guanines? Bioroebe::GenbankFlatFileFormatGenerator
#n_matches? Bioroebe::Levensthein
#n_matches? Bioroebe::SimpleStringComparer
#n_mismatches? Bioroebe::Levensthein
#n_nucleotides? Bioroebe::ParseFasta
#n_nucleotides? Bioroebe::GenbankFlatFileFormatGenerator
#n_nucleotides? Bioroebe::ShowOrf
#n_nucleotides_in_total? Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#n_random_dna Bioroebe::NucleotideModule
#n_repeats? Bioroebe::ScanForRepeat
n_stop_codons_in_this_sequence? Bioroebe
#n_t Bioroebe::CountAmountOfNucleotides
#n_thymines? Bioroebe::GenbankFlatFileFormatGenerator
n_transitions Bioroebe
n_transversions Bioroebe
#n_uracil? Bioroebe::Shell
#n_uracil? Bioroebe::Sequence
#name Bioroebe::SVG::Track
name Bioroebe::Protein
#name? Bioroebe::Biomart::Filter
#name? Bioroebe::Biomart::Attribute
#name? Bioroebe::Biomart::Dataset
#name? Bioroebe::Biomart::Database
#name? Bioroebe::Gene
#name_of_gene? Bioroebe::Shell
#name_of_gene? Bioroebe::DNA
#name_of_the_codon_table? Bioroebe::MostLikelyNucleotideSequenceForThisAminoacidSequence
#name_of_the_codon_table? Bioroebe::CodonPercentage
#name_of_the_locus? Bioroebe::GenbankFlatFileFormatGenerator
#name_of_the_species? Bioroebe::ParsePdbFile
#names? Bioroebe::Taxonomy
#names_sql Bioroebe::Taxonomy::Interactive
#namespace? Bioroebe::Base
#ncbi_nucleotide_search_for Bioroebe::Shell
#ncols? Bioroebe::Matrix
#no_file? Bioroebe::ElectronMicroscopy::ParseCoordinates
#no_file_exists_at Bioroebe::Base
no_file_exists_at Bioroebe
#no_newlines Bioroebe::Shell
#no_newlines Bioroebe::Base
#no_output Bioroebe::DnaToAminoacidSequence
#nodes? Bioroebe::Taxonomy
#nodes_sql Bioroebe::Taxonomy::Interactive
#nohelp Bioroebe::Taxonomy::Interactive
#not_yet_implemented Bioroebe::EmbeddableInterface
#notify_the_user_about_the_available_restriction_enzymes Bioroebe::ShowRestrictionEnzymes
#notify_the_user_as_to_how_findgene_works Bioroebe::Shell
#notify_the_user_that_no_such_codon_table_could_be_found Bioroebe::ShowThisCodonTable
#nrows Bioroebe::Matrix
nucleotide_permutations Bioroebe
#nucleotide_sequence? Bioroebe::Shell
#nucleotide_sequence? Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#nucleotides_or_aminoacids? Bioroebe::ParseFasta
#nucleotides_or_aminoacids? Bioroebe::Shell
number_of_clones Bioroebe
#number_rows Bioroebe::SVG::Track
#observed_frequency Bioroebe::Compseq
#obtain_all_pos_files Bioroebe::ElectronMicroscopy::CoordinateAnalyzer
#obtain_commandline_arguments_and_reject_double_separators Bioroebe::ShowOrf
#obtain_current_prompt Bioroebe::Shell
#obtain_current_prompt_while_honouring_colours Bioroebe::Shell
#obtain_full_lineage_for Bioroebe::Taxonomy::Interactive
#obtain_multiline_fasta Bioroebe::Shell
#obtain_url_for Bioroebe::Shell
#on_reset_action_called Bioroebe::GUI::AntiSenseStrand
#on_right_click_in_the_tree_view_deselect_the_selection Bioroebe::GUI::Gtk::RandomSequence
#one_letter_to_full_name Bioroebe::PossibleCodonsForThisAminoacid
#one_letter_to_long_name Bioroebe::CommandlineApplication
one_to_three Bioroebe::Protein
#one_to_three Bioroebe::CommandlineApplication
one_to_three Bioroebe
#one_two_or_three Bioroebe::DnaToAminoacidSequence
#only_nucleotides? Bioroebe::Shell
only_nucleotides? Bioroebe
#only_numbers? Bioroebe::CommandlineApplication
#only_valid_nucleotides? Bioroebe::Shell
#open_1igt_in_the_browser Bioroebe::Shell
#open_blast_webpage Bioroebe::Shell
#open_expasy Bioroebe::Shell
open_in_browser Bioroebe
#open_in_browser Bioroebe::CommandlineApplication
#open_in_uniprot Bioroebe::Shell
#open_local_file Bioroebe::GUI::Gtk::NucleotideAnalyser
#open_my_files Bioroebe::Shell
#open_project_files Bioroebe::Taxonomy::Interactive
open_reading_frames_to_aminoacid_sequence Bioroebe
#open_tag Bioroebe::SVG::SVGEE
#open_this_file_in_editor Bioroebe::Shell
#open_this_ncbi_page Bioroebe::Shell
#open_via_the_browser Bioroebe::GenomeRetriever
#opne Bioroebe::CommandlineApplication
#opnn Bioroebe::ShowHydrophobicity
#opnn Bioroebe::ParseFasta
opnn Bioroebe::Ncbi
#opnn Bioroebe::CommandlineApplication
#orange_f1 Bioroebe::ShowOrf
#orange_f2 Bioroebe::ShowOrf
#orange_f3 Bioroebe::ShowOrf
#organism_common? Bioroebe::ParsePdbFile
#original_input? Bioroebe::PossibleCodonsForThisAminoacid
#output_colourized_sequence Bioroebe::ColourizeHydrophilicAndHydrophobicAminoacids
#output_full_line_for Bioroebe::Compseq
#output_match Bioroebe::Dotplot
#output_results Bioroebe::ParseFasta
#overlaps Bioroebe::SVG::Track
overwrite_fasta_header Bioroebe
#overwrite_the_original_file? Bioroebe::ParseFasta
#p Bioroebe::Sinatra
#pad Bioroebe::Taxonomy
#pad_properly Bioroebe::Taxonomy
#pad_sql Bioroebe::Taxonomy
#pad_with_double_quotes Bioroebe::CommandlineApplication
#pad_with_single_quotes Bioroebe::CommandlineApplication
#padding? Bioroebe::Shell
#padding? Bioroebe::GUI::Gtk::AminoacidComposition
#padding? Bioroebe::GUI::ProteinToDNAModule
#padding? Bioroebe::GUI::Gtk::RandomSequence
#padding? Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#padding? Bioroebe::GUI::Gtk::FormatConverter
#padding? Bioroebe::GUI::Gtk::DnaToReverseComplementWidget
#padding? Bioroebe::GUI::Gtk::PrimerDesignWidget
#padding? Bioroebe::GUI::ShowCodonTableModule
#padding? Bioroebe::GUI::CalculateCellNumbersOfBacteriaModule
#padding? Bioroebe::GUI::Gtk::Snapgene
#padding? Bioroebe::GUI::Gtk::Sizeseq
#padding? Bioroebe::GUI::Gtk::BlosumMatrixViewer
#padding? Bioroebe::GUI::DnaToReverseComplementWidgetModule
#padding? Bioroebe::GUI::Gtk::Gene
#padding? Bioroebe::GUI::Gtk::Controller
#padding? Bioroebe::GUI::Gtk::ParsePdbFile
#padding? Bioroebe::GUI::AntiSenseStrand
#padding? Bioroebe::GUI::Gtk::FastaTableWidget
#padding? Bioroebe::GUI::Gtk::RestrictionEnzymes
#padding? Bioroebe::GUI::Gtk::HammingDistance
#padding? Bioroebe::GUI::Gtk::ThreeToOne
#padding? Bioroebe::GUI::Gtk::Alignment
#padding? Bioroebe::GUI::Gtk::WwwFinder
#padding? Bioroebe::GUI::LevenstheinDistanceModule
#padding? Bioroebe::GUI::Gtk::NucleotideAnalyser
#padding? Bioroebe::GUI::ShowCodonUsageModule
palindrome_generator Bioroebe
#params Bioroebe::SVG::MiniFeature
#parent? Bioroebe::Taxonomy::Node
#parent_taxid Bioroebe::Taxonomy::Node
parse Bioroebe::Taxonomy::Info
#parse Bioroebe::Shell
parse Bioroebe
parse Bioroebe::Taxonomy::Node
#parse_commandline_arguments Bioroebe::CountAmountOfNucleotides
parse_fasta Bioroebe
parse_fasta_file Bioroebe
#parse_fasta_format Bioroebe::Shell
parse_fasta_quietly Bioroebe
parse_gff Bioroebe::SVG::Page
#parse_input Bioroebe::CalculateBlosumScore
#parse_input Bioroebe::FastqFormatExplainer
parse_pdb_file Bioroebe
#parse_string1_and_string2 Bioroebe::Levensthein
#parse_this_fasta_sequence Bioroebe::Shell
#parse_this_gff_file Bioroebe::Shell
#parse_this_pdb_file Bioroebe::Shell
parse_this_prosite_pattern Bioroebe
#parse_x_y_coordinate Bioroebe::ElectronMicroscopy::ParseCoordinates
partner_nucleotide Bioroebe
#partner_nucleotide Bioroebe::CommandlineApplication
partner_nucleotide_hash Bioroebe
#path_to_the_fasta_file? Bioroebe::GUI::Gtk::AminoacidComposition
pathways Bioroebe
pdb_directory? Bioroebe
percent_to_hex Bioroebe::ColourScheme::Score
#perform_a_pubmed_search Bioroebe::Shell
#perform_frameshift_action Bioroebe::Shell
#perform_startup_actions Bioroebe::Shell
#perform_the_digestion Bioroebe::Trypsin
permanently_disable_opn Bioroebe
#permanently_disable_startup_intro Bioroebe::Shell
#permutation_length? Bioroebe::Permutations
permutations Bioroebe
phred_error_probability Bioroebe
#pointer_dataset Bioroebe::Biomart::Filter
#pointer_filter Bioroebe::Biomart::Filter
#populate_hash_from_the_dataset Bioroebe::Taxonomy::Chart
#populate_the_grid Bioroebe::GUI::AntiSenseStrand
#populate_the_grid Bioroebe::GUI::Gtk::LevenstheinDistance
#populate_the_list_store_with_the_default_dataset Bioroebe::GUI::Gtk::FastaTableWidget
#possible_codons? Bioroebe::PossibleCodonsForThisAminoacid
possible_codons_for_these_aminoacids Bioroebe
possible_codons_for_this_aminoacid Bioroebe
#prepend Bioroebe::RawSequence
#prepend Bioroebe::Shell
#primer Bioroebe::Shell
#primitive? Bioroebe::SVG::Primitive
#primitives? Bioroebe::SVG::SVGEE
#print_aa_table Bioroebe::Shell
#print_aminoacid_information_table Bioroebe::Shell
#print_consensus_sequence Bioroebe::Alignment
#print_rev Bioroebe::Shell
#print_row_for Bioroebe::Alignment
#print_separator Bioroebe::PhredQualityScoreTable
#print_this_line_of_a_codon_table Bioroebe::ShowCodonTables
#process_each_pdb_file Bioroebe::ParsePdbFile
#process_everything Bioroebe::CalculateGCContent
#process_string Bioroebe::FindGene
#process_user_input Bioroebe::Taxonomy::Interactive
#project_base_dir? Bioroebe::Taxonomy
project_base_dir? Bioroebe::Taxonomy
project_base_dir? Bioroebe
project_yaml_dir? Bioroebe::Taxonomy
project_yaml_directory? Bioroebe
#project_yaml_directory? Bioroebe::Base
#protein_stats Bioroebe::Shell
proxy Bioroebe::Biomart
#pubmed Bioroebe::Shell
#punnet Bioroebe::Shell
#purge Bioroebe::Shell
#purge_tabulator_tokens Bioroebe::CreateAnnotationFormat
#pwd Bioroebe
pwd Bioroebe
#qualifier? Bioroebe::Biomart::Filter
#quantification_of_proteins Bioroebe::UsefulFormulas
quaternary_encoding_DNA_to_numbers Bioroebe
quaternary_encoding_letter_to_number Bioroebe
quaternary_encoding_number_to_letter Bioroebe
quaternary_encoding_numbers_to_DNA Bioroebe
quaternary_encoding_translate_from_alphabet_string_into_the_corresponding_DNA_sequence Bioroebe
#query Bioroebe::Taxonomy::Interactive
#query_from_localome_table Bioroebe::Taxonomy::Interactive
#query_localome Bioroebe::Taxonomy::Interactive
#query_localome_including_path Bioroebe::Taxonomy::Interactive
#query_localomes_by_modtime Bioroebe::Taxonomy::Interactive
#query_whether_we_have_this_id Bioroebe::Taxonomy::Interactive
#r1 Bioroebe::ShowOrf
#r2 Bioroebe::ShowOrf
#r3 Bioroebe::ShowOrf
#random Bioroebe::NucleotideModule
#random Bioroebe::Shell
random_aminoacid? Bioroebe
#random_dna_sequence Bioroebe::Shell
#random_insert Bioroebe::Shell
#random_nucleotide_for_this_IUPAC_code Bioroebe::ConsensusSequence
#randomize Bioroebe::Sequence
#rank Bioroebe::Taxonomy::Node
#raw_aminoacid_sequence? Bioroebe::Shell
#raw_body? Bioroebe::ParseFasta
#rds Bioroebe::Base
#rds Bioroebe::Taxonomy::Interactive
rds Bioroebe
#read_file_content Bioroebe::BiolangParser
#read_in_dataset Bioroebe::CreateAnnotationFormat
#read_in_names_and_nodes_sql_files Bioroebe::Taxonomy::Interactive
#read_in_url Bioroebe::ParseTaxonomy
#read_remote_url Bioroebe::FastaParser
#read_sql Bioroebe::Taxonomy::Interactive
#read_user_input Bioroebe::Shell
readline_is_available? Bioroebe
#readline_is_available? Bioroebe::Shell
#readlines Bioroebe::Taxonomy::Shared
#readlines_from_this_file Bioroebe::ParsePdbFile
#realign_the_numbers_showing_how_long_the_consensus_sequence_is Bioroebe::GUI::Gtk::Alignment
#record Bioroebe::FindLongestSubstring
#record_last_command Bioroebe::Taxonomy::Interactive
#red Bioroebe::ColoursForBase
#red Bioroebe::Taxonomy::Info
regex_with_startcodons Bioroebe
#register_sigint Bioroebe::Base
#register_this_download Bioroebe::Shell
#reject_intron_lines Bioroebe::CreateAnnotationFormat
#remaining_arguments? Bioroebe::Shell
#remove_delimiter Bioroebe::Taxonomy
#remove_ends Bioroebe::GUI::Gtk::PrimerDesignWidget
remove_file Bioroebe
#remove_gene Bioroebe::GenomePattern
#remove_hyphens_from_the_commandline_arguments Bioroebe::CommandlineArguments
remove_invalid_aminoacids Bioroebe
#remove_invalid_entries_from_the_dna_sequence Bioroebe::NucleotideModule
#remove_invalid_entries_from_the_dna_sequence Bioroebe::Sequence
#remove_invalid_entries_from_the_dna_sequence! Bioroebe::Sequence
#remove_leading_cds_string Bioroebe::CreateAnnotationFormat
#remove_n_characters_from_the_left_side Bioroebe::RawSequence
#remove_newlines Bioroebe::ShowOrf
#remove_numbers Bioroebe::CommandlineApplication
remove_numbers Bioroebe
#remove_old_log_file Bioroebe::ElectronMicroscopy::CoordinateAnalyzer
#remove_question_mark? Bioroebe::Shell
#remove_sequence Bioroebe::Shell
remove_subsequence Bioroebe
#remove_taxid_from_localome_table Bioroebe::Taxonomy::Interactive
#remove_trailing_ansii_escape_code Bioroebe::CommandlineApplication
#remove_trailing_escape_code Bioroebe::Shell
#remove_trailing_escape_part Bioroebe::ColoursForBase
#rename_to_fasta Bioroebe::DownloadFasta
#repeat_last_command Bioroebe::Taxonomy::Interactive
#replace_match_with_forward_strand Bioroebe::CreateAnnotationFormat
#replace_this_input_with_modulo_ten Bioroebe::DisplayOpenReadingFrames
#replay Bioroebe::Shell
#report Bioroebe::Trypsin
#report Bioroebe::RGG_Scanner
#report Bioroebe::ElectronMicroscopy::ReadFileXMD
#report Bioroebe::PalindromeGenerator
#report Bioroebe::DotAlignment
#report Bioroebe::MirrorRepeat
#report Bioroebe::ScanForRepeat
#report Bioroebe::ReverseComplement
#report Bioroebe::Permutations
#report Bioroebe::DnaToAminoacidSequence
#report Bioroebe::ShowThisDNASequence
#report Bioroebe::ShowNucleotideSequence
#report Bioroebe::GenomePattern
#report Bioroebe::Taxonomy::IsDNA
#report Bioroebe::CreateRandomAminoacids
#report Bioroebe::ComplementaryDnaStrand
#report Bioroebe::DeduceAminoacidSequence
#report_AT_content Bioroebe::CountAmountOfNucleotides
#report_GC_content Bioroebe::CountAmountOfNucleotides
#report_accession_id Bioroebe::Parser::GFF
#report_aligned_sequences_using_this_array Bioroebe::AlignOpenReadingFrames
#report_all_stop_codons Bioroebe::Shell
#report_alpha_helices Bioroebe::ReportSecondaryStructuresFromThisPdbFile
#report_atcg_content Bioroebe::DetermineMissingNucleotidesPercentage
#report_available_entries Bioroebe::BiolangParser
report_base_composition Bioroebe
#report_beta_sheets Bioroebe::ReportSecondaryStructuresFromThisPdbFile
#report_colourized_sequence Bioroebe::Shell
#report_current_genbank_version Bioroebe::Shell
#report_current_working_directory Bioroebe::Shell
#report_dataset Bioroebe::CreateAnnotationFormat
#report_everything Bioroebe::CountAmountOfNucleotides
#report_everything_about_this_amino_acid Bioroebe::Shell
#report_extra_information_about_the_species_at_hand Bioroebe::ParsePdbFile
#report_filesize Bioroebe::Taxonomy::ParseFasta
#report_five_prime_three_prime Bioroebe::Shell
#report_forward_strand Bioroebe::PalindromeGenerator
#report_gene Bioroebe::FindGene
#report_header Bioroebe::ParsePdbFile
#report_how_long_it_took_us Bioroebe::Taxonomy::Interactive
#report_how_many_ORFs_are_found Bioroebe::DisplayOpenReadingFrames
#report_how_many_aminoacids_we_have Bioroebe::Shell
#report_how_many_aminoacids_we_have_found Bioroebe::CountAmountOfAminoacids
#report_how_many_asparagines_are_in_this_sequence Bioroebe::AnalyseGlycosylationPattern
#report_how_many_elements_we_have_found Bioroebe::ParseFasta
#report_how_many_entries_exist Bioroebe::Taxonomy::ParseFasta
#report_how_many_info_files_exist_and_how_many_lack_taxonomy_id Bioroebe::Taxonomy::Interactive
#report_how_many_nucleotides_we_have_found Bioroebe::CountAmountOfNucleotides
#report_how_many_particles_we_have_found Bioroebe::ElectronMicroscopy::CoordinateAnalyzer
#report_how_many_restriction_enzymes_were_found Bioroebe::ShowRestrictionEnzymes
#report_how_many_rgg_motifs_were_found_in_that_sequence Bioroebe::RGG_Scanner
#report_how_many_serines_are_in_this_sequence Bioroebe::AnalyseGlycosylationPattern
#report_how_many_start_codons_exist Bioroebe::CountAmountOfNucleotides
#report_how_many_threonines_are_in_this_sequence Bioroebe::AnalyseGlycosylationPattern
#report_last_modification_time Bioroebe::Taxonomy::ParseFasta
#report_lineage_ids_and_lineage_scientific_name Bioroebe::Taxonomy::Interactive
#report_lineage_of Bioroebe::Taxonomy::Interactive
#report_longest_substring Bioroebe::FindLongestSubstring
#report_main_file Bioroebe::BiolangParser
#report_main_sequence Bioroebe::Shell
#report_mode Bioroebe::Shell
#report_molecular_weight Bioroebe::CalculateMeltingTemperature
#report_n_atoms Bioroebe::ParsePdbFile
#report_n_differences Bioroebe::HammingDistance
#report_n_proteins_registered_in_swiss_prot Bioroebe::Shell
#report_n_registered_organisms_in_localome Bioroebe::Taxonomy::Interactive
report_n_species Bioroebe::Taxonomy
#report_n_start_codons Bioroebe::Shell
#report_on_how_many_entries_we_did_work Bioroebe::ParseFasta
#report_on_which_sequences_we_will_operate Bioroebe::ConsensusSequence
#report_one_letter_code Bioroebe::ShowHydrophobicity
#report_one_sequence Bioroebe::Taxonomy::ParseFasta
#report_result Bioroebe::StrideParser
#report_result Bioroebe::HammingDistance
#report_result Bioroebe::SanitizeCodonFrequency
#report_result Bioroebe::FastqFormatExplainer
#report_result Bioroebe::CalculateMeltingTemperature
#report_result Bioroebe::SanitizeNucleotideSequence
#report_result Bioroebe::DetectMinimalCodon
#report_result Bioroebe::ConvertAminoacidToDNA
#report_result Bioroebe::ColourSchemeDemo
#report_result Bioroebe::PossibleCodonsForThisAminoacid
#report_result? Bioroebe::DnaToAminoacidSequence
#report_results Bioroebe::CheckForMismatches
#report_results Bioroebe::CalculateGCContent
#report_results Bioroebe::Punnet
#report_results_from_the_frequencies_and_the_size_of_the_sequence_at_hand Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#report_reverse_strand Bioroebe::PalindromeGenerator
#report_size_of Bioroebe::Shell
#report_size_of_main_string Bioroebe::Shell
#report_sorted_by_most_hydrophobic_aminoacid_first Bioroebe::ShowHydrophobicity
#report_stats Bioroebe::ElectronMicroscopy::ParseCoordinates
#report_status_to_the_user Bioroebe::Taxonomy::CheckAvailable
#report_syntax_help_for_frameshift_action Bioroebe::Shell
#report_that_a_string_must_be_assigned_first Bioroebe::Shell
#report_that_no_ORF_has_been_found Bioroebe::AlignOpenReadingFrames
#report_that_the_main_sequence_is_frozen Bioroebe::Shell
#report_that_we_have_finished_the_download Bioroebe::DownloadTaxonomyDatabase
#report_the_FASTA_header Bioroebe::ParseFasta
#report_the_amount_of_mismatches_and_gaps Bioroebe::Levensthein
#report_the_amount_of_nucleotides_in_short_form_on_a_single_line Bioroebe::CountAmountOfNucleotides
#report_the_atomic_composition Bioroebe::CountAmountOfAminoacids
#report_the_consensus_sequence Bioroebe::ConsensusSequence
#report_the_dataset? Bioroebe::GenbankParser
#report_the_edit_distance Bioroebe::Levensthein
#report_the_first_atg Bioroebe::Shell
#report_the_frequencies_properly_formatted Bioroebe::ParseFrequencyTable
#report_the_header Bioroebe::FastqFormatExplainer
#report_the_molecular_mass_of_these_aminoacids Bioroebe::CountAmountOfAminoacids
#report_the_nucleotide_composition Bioroebe::ParseFasta
#report_the_number_of_negatively_and_positively_charged_residues Bioroebe::CountAmountOfAminoacids
#report_the_protein_weight Bioroebe::Shell
#report_the_quality_score Bioroebe::FastqFormatExplainer
#report_the_sequence Bioroebe::FastqFormatExplainer
#report_the_sequence? Bioroebe::ParseFasta
#report_the_start_codons_and_the_stop_codons_in_use Bioroebe::DisplayOpenReadingFrames
#report_the_tm_value Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#report_the_top_five_codons Bioroebe::ShowCodonUsage
#report_the_total_cost Bioroebe::Levensthein
#report_these_files Bioroebe::ShowFastaHeaders
#report_this_dna_sequence_with_proper_trailer_and_leader Bioroebe::Shell
#report_this_header_from_that_file Bioroebe::ShowFastaHeaders
#report_this_input_was_not_found Bioroebe::Shell
#report_this_sequence Bioroebe::ShowNucleotideSequence
#report_total_amount Bioroebe::CountAmountOfNucleotides
#report_total_amount_of_proteomes Bioroebe::Taxonomy::Interactive
#report_total_length Bioroebe::CalculateMeltingTemperature
#report_translated_hydropathy Bioroebe::ShowHydrophobicity
#report_tree_lineage Bioroebe::Taxonomy::Interactive
#report_url_used Bioroebe::FastaParser
#report_useful_packages_installed Bioroebe::Shell
report_weight Bioroebe::MolecularWeightOfNucleotides
#report_what_we_will_do Bioroebe::ElectronMicroscopy::ReadFileXMD
#report_when_the_bioroebe_project_was_last_updated Bioroebe::Shell
#report_where_the_commands_will_be_stored_and_store_them Bioroebe::RNALfoldWrapper
#report_where_the_file_is_stored_at Bioroebe::DownloadFasta
#report_where_the_home_directory_can_be_found Bioroebe::Shell
#report_where_the_pdf_tutorial_can_be_found Bioroebe::Shell
#report_where_we_store Bioroebe::Shell
#report_whether_it_is_nt_or_proteine Bioroebe::Taxonomy::ParseFasta
#report_whether_readline_is_available Bioroebe::Shell
#report_whether_we_will_make_use_of_expand_cd_aliases Bioroebe::Shell
report_which_file_is_used Bioroebe::AminoacidsMassTable
#report_which_yaml_engine_is_in_use Bioroebe::Shell
#request Bioroebe::Biomart
require_all_aminoacids_files Bioroebe
require_all_calculate_files Bioroebe
require_all_cleave_and_digest_files Bioroebe
require_all_codon_files Bioroebe
require_all_colour_scheme_files Bioroebe::ColourScheme
require_all_count_files Bioroebe
require_all_dotplot_files Bioroebe
require_all_electron_microscopy_files Bioroebe
require_all_enzymes_files Bioroebe
require_all_fasta_and_fastq_files Bioroebe
require_all_nucleotides_files Bioroebe
require_all_palindromes_files Bioroebe
require_all_parser_files Bioroebe
require_all_pattern_files Bioroebe
require_all_pdb_files Bioroebe
require_all_sequence_files Bioroebe
require_all_string_matching_files Bioroebe
require_all_taxonomy_files Bioroebe
require_all_utility_scripts_files Bioroebe
require_the_toplevel_methods Bioroebe
#reset Bioroebe::Taxonomy::Interactive
#reset Bioroebe::FindLongestSubstring
#reset Bioroebe::GUI::Tk::ThreeToOne
#reset Bioroebe::AnalyseLocalDataset
#reset Bioroebe::ShowCodonUsage
#reset Bioroebe::Base
#reset Bioroebe::ShowFastaStatistics
#reset Bioroebe::Protein
#reset Bioroebe::GUI::Gtk::LevenstheinDistance
#reset Bioroebe::UsefulFormulas
#reset Bioroebe::PalindromeGenerator
#reset Bioroebe::Permutations
#reset Bioroebe::GUI::Gtk::PrimerDesignWidget
#reset Bioroebe::GUI::Gtk::FastaTableWidget
#reset Bioroebe::SimpleStringComparer
#reset Bioroebe::Taxonomy::Chart
#reset Bioroebe::ElectronMicroscopy::SimpleStarFileGenerator
#reset Bioroebe::ParseFrequencyTable
#reset Bioroebe::GUI::LibUI::Alignment
#reset Bioroebe::GUI::Tk::AminoacidComposition
#reset Bioroebe::ElectronMicroscopy::ParseCoordinates
#reset Bioroebe::ReportSecondaryStructuresFromThisPdbFile
#reset Bioroebe::ShowThisDNASequence
#reset Bioroebe::LengthModifier
#reset Bioroebe::PhredQualityScoreTable
#reset Bioroebe::GUI::LibUI::ShowCodonUsage
#reset Bioroebe::ShowRestrictionEnzymes
#reset Bioroebe::Dotplot
#reset Bioroebe::Levensthein
#reset Bioroebe::HammingDistance
#reset Bioroebe::GUI::LibUI::ShowCodonTable
#reset Bioroebe::GUI::Jruby::BlosumMatrixViewer
#reset Bioroebe::GUI::LibUI::BlosumMatrixViewer
#reset Bioroebe::Biomart::Server
#reset Bioroebe::FastaToYaml
#reset Bioroebe::Shell::Help
#reset Bioroebe::CalculateMeltingTemperature
#reset Bioroebe::ShowThisCodonTable
#reset Bioroebe::PalindromeFinder
#reset Bioroebe::FastaDefline
#reset Bioroebe::DnaToAminoacidSequence
#reset Bioroebe::AlphaHelix
#reset Bioroebe::ReverseComplement
#reset Bioroebe::MoveFileToItsCorrectLocation
#reset Bioroebe::ShowCodonTables
#reset Bioroebe::RGG_Scanner
#reset Bioroebe::DownloadFilesFromRebase
#reset Bioroebe::SVG::MiniFeature
#reset Bioroebe::GUI::LibUI::LevenstheinDistance
#reset Bioroebe::StrideParser
#reset Bioroebe::ShowNucleotideSequence
#reset Bioroebe::ElectronMicroscopy::CoordinateAnalyzer
#reset Bioroebe::GenomeRetriever
#reset Bioroebe::Sequence
#reset Bioroebe::Taxonomy::CheckAvailable
#reset Bioroebe::GUI::Gtk::AminoacidComposition
#reset Bioroebe::DetectMinimalCodon
#reset Bioroebe::ComplementaryDnaStrand
#reset Bioroebe::ParsemmCIFFile
#reset Bioroebe::AminoacidSubstitution
#reset Bioroebe::GUI::Gtk::Sizeseq
#reset Bioroebe::Biomart::Database
#reset Bioroebe::DownloadTaxonomyDatabase
#reset Bioroebe::Taxonomy::IsDNA
#reset Bioroebe::Taxonomy::Info
#reset Bioroebe::DisplayOpenReadingFrames
#reset Bioroebe::Digestion
#reset Bioroebe::ElectronMicroscopy::GenerateEm2emFile
#reset Bioroebe::ConvertAminoacidToDNA
#reset Bioroebe::CodonPercentage
#reset Bioroebe::ElectronMicroscopy::FixPosFile
#reset Bioroebe::CompactFastaFile
#reset Bioroebe::ProfilePattern
#reset Bioroebe::ParseFasta
#reset Bioroebe::GUI::Gtk::BlosumMatrixViewer
#reset Bioroebe::GUI::Gtk::ShowCodonUsage
#reset Bioroebe::Taxonomy::Node
#reset Bioroebe::BlosumParser
#reset Bioroebe::MirrorRepeat
#reset Bioroebe::Compseq
#reset Bioroebe::AutocorrectTheNameOfThisFastaFile
#reset Bioroebe::GUI::Gtk::NucleotideAnalyser
#reset Bioroebe::GUI::AntiSenseStrand
#reset Bioroebe::CreateAnnotationFormat
#reset Bioroebe::RestrictionEnzyme
#reset Bioroebe::ScanForRepeat
#reset Bioroebe::GUI::Gtk::HammingDistance
#reset Bioroebe::HelixWheel
#reset Bioroebe::Punnet
#reset Bioroebe::CalculateThePositionSpecificScoringMatrix
#reset Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#reset Bioroebe::GUI::Gtk::FormatConverter
#reset Bioroebe::FastqFormatExplainer
#reset Bioroebe::Alignment
#reset Bioroebe::ShowOrf
#reset Bioroebe::ColourizeSequence
#reset Bioroebe::GenomePattern
#reset Bioroebe::MatplotlibGenerator
#reset Bioroebe::RNALfoldWrapper
#reset Bioroebe::Pathways
#reset Bioroebe::ShowHydrophobicity
#reset Bioroebe::AnalyseGlycosylationPattern
#reset Bioroebe::Biomart::Dataset
#reset Bioroebe::DeduceAminoacidSequence
#reset Bioroebe::CalculateGCContent
#reset Bioroebe::GenbankFlatFileFormatGenerator
#reset Bioroebe::FindGene
#reset Bioroebe::FindLongestSubstringViaLCSalgorithm
#reset Bioroebe::DetermineMissingNucleotidesPercentage
#reset Bioroebe::GUI::Gtk::ProteinToDNA
#reset Bioroebe::AminoacidsMassTable
#reset Bioroebe::Compacter
#reset Bioroebe::DownloadFasta
#reset Bioroebe::GUI::LibUI::DnaToAminoacidWidget
#reset Bioroebe::Genome
#reset Bioroebe::Palindrome2DStructure
#reset Bioroebe::CountAmountOfNucleotides
#reset Bioroebe::CheckForMismatches
#reset Bioroebe::Sinatra
#reset Bioroebe::ColourizeHydrophilicAndHydrophobicAminoacids
#reset Bioroebe::GUI::Tk::BlosumMatrixViewer
#reset Bioroebe::DetermineAntigenicAreas
#reset Bioroebe::GUI::Gtk::Controller
#reset Bioroebe::SimplifyFastaHeader
#reset Bioroebe::SplitThisFastaFileIntoChromosomes
#reset Bioroebe::Shell
#reset Bioroebe::SanitizeCodonFrequency
#reset Bioroebe::DetermineOptimalCodons
#reset Bioroebe::Quiz::ThreeLetterToAminoacid
#reset Bioroebe::ParseFastq
#reset Bioroebe::Taxonomy::ParseFasta
#reset Bioroebe::Parser::GFF
#reset Bioroebe::AlignOpenReadingFrames
#reset Bioroebe::GUI::LibUI::ProteinToDNA
#reset Bioroebe::DisplayHowManyFastaEntriesAreInThisDirectory
#reset Bioroebe::BiolangParser
#reset Bioroebe::GUI::Gtk::RandomSequence
#reset Bioroebe::GUI::Gtk::Gene
#reset Bioroebe::MostLikelyNucleotideSequenceForThisAminoacidSequence
#reset Bioroebe::CreateRandomAminoacids
#reset Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#reset Bioroebe::ParseTaxonomy
#reset Bioroebe::ElectronMicroscopy::ReadFileXMD
#reset Bioroebe::GUI::Gtk::ShowCodonTable
#reset Bioroebe::DNA
#reset Bioroebe::ParseEMBL
#reset Bioroebe::GUI::LibUI::RandomSequence
#reset Bioroebe::Ruler
#reset Bioroebe::GUI::Gtk::DnaToReverseComplementWidget
#reset Bioroebe::ColourSchemeDemo
#reset Bioroebe::GenbankParser
#reset Bioroebe::RawSequence
#reset Bioroebe::ElectronMicroscopy::FlipY
#reset Bioroebe::ConsensusSequence
#reset Bioroebe::ParsePdbFile
#reset Bioroebe::GUI::Gtk::Alignment
#reset Bioroebe::GUI::Gtk::RestrictionEnzymes
#reset Bioroebe::PossibleCodonsForThisAminoacid
#reset Bioroebe::FastaParser
#reset Bioroebe::CalculateBlosumScore
#reset Bioroebe::GUI::LibUI::DnaToReverseComplementWidget
#reset Bioroebe::FetchFastaSequenceFromPdb
#reset Bioroebe::GUI::Gtk::CalculateCellNumbersOfBacteria
#reset Bioroebe::SVG::SVGEE
#reset Bioroebe::GUI::Gtk::ThreeToOne
#reset Bioroebe::GUI::LibUI::CalculateCellNumbersOfBacteria
#reset Bioroebe::AdvancedDotplot
#reset Bioroebe::GUI::Gtk::Snapgene
#reset Bioroebe::CommandlineArguments
#reset Bioroebe::GUI::Tk::LevenstheinDistance
#reset Bioroebe::CreateBatchEntrezFile
#reset Bioroebe::GUI::Gtk::WwwFinder
#reset Bioroebe::Ncbi
#reset Bioroebe::CountAmountOfAminoacids
#reset Bioroebe::Gene
#reset Bioroebe::DisplayAminoacidTable
#reset Bioroebe::GUI::Tk::HammingDistance
#reset Bioroebe::Trypsin
#reset Bioroebe::Cell
#reset Bioroebe::GUI::Gtk::ParsePdbFile
#reset Bioroebe::SVG::Page
#reset Bioroebe::ShowFastaHeaders
#reset Bioroebe::SanitizeNucleotideSequence
#reset Bioroebe::DotAlignment
#reset_internal_variables Bioroebe::ParsePdbFile
#reset_result Bioroebe::DotAlignment
#reset_shared_module Bioroebe::GUI::DnaToReverseComplementWidgetModule
#reset_shared_module Bioroebe::GUI::CalculateCellNumbersOfBacteriaModule
#reset_spacer Bioroebe::HammingDistance
#reset_the_class Bioroebe::DeduceAminoacidSequence
#reset_the_scores Bioroebe::Levensthein
#reset_the_shared_module Bioroebe::GUI::ShowCodonUsageModule
#reset_the_shared_module Bioroebe::GUI::ShowCodonTableModule
#reset_then_run Bioroebe::GUI::LibUI::ShowCodonTable
#reset_then_run Bioroebe::GUI::LibUI::BlosumMatrixViewer
#reset_then_run Bioroebe::GUI::LibUI::RandomSequence
#reset_then_run Bioroebe::GUI::LibUI::Alignment
#reset_to_initial_state Bioroebe::Shell
#restore_default_prompt Bioroebe::Shell
#restore_the_last_chop_operation Bioroebe::Shell
restriction_enzyme Bioroebe
#restriction_enzyme_digest Bioroebe::Shell
restriction_enzymes Bioroebe
restriction_enzymes? Bioroebe
restriction_enzymes_file Bioroebe
#restriction_enzymes_run Bioroebe::Shell
#result? Bioroebe::MirrorRepeat
#result? Bioroebe::DetectMinimalCodon
#result? Bioroebe::FetchFastaSequenceFromPdb
#result? Bioroebe::Taxonomy::IsDNA
#result? Bioroebe::Compseq
#result? Bioroebe::Ruler
#result? Bioroebe::ComplementaryDnaStrand
#result? Bioroebe::DnaToAminoacidSequence
#result? Bioroebe::CalculateMeltingTemperature
#result? Bioroebe::PalindromeGenerator
#result? Bioroebe::FindLongestSubstring
#result? Bioroebe::PossibleCodonsForThisAminoacid
#result? Bioroebe::Trypsin
#result? Bioroebe::ColourSchemeDemo
#result? Bioroebe::Permutations
#result_as_string? Bioroebe::Ruler
#return_1_to_10 Bioroebe::Digestion
#return_A_or_C Bioroebe::ConsensusSequence
#return_A_or_T Bioroebe::ConsensusSequence
#return_A_or_T_or_C Bioroebe::ConsensusSequence
return_DNA_composition_hash Bioroebe
#return_a_random_sequence_of_n_nucleotides Bioroebe::Shell
#return_all_ATOM_entries Bioroebe::ParsePdbFile
#return_all_codon_tables Bioroebe::GUI::Gtk::ShowCodonTable
#return_all_genes Bioroebe::Shell
return_all_open_reading_frames_from_this_sequence Bioroebe
return_all_positions_of_this_nucleotide Bioroebe
#return_all_possible_start_codons Bioroebe::CommandlineApplication
return_all_substring_matches Bioroebe
return_aminoacid_sequence_from_this_pdb_file Bioroebe
return_aminoacid_sequence_from_this_string Bioroebe
#return_an_even_simpler_consensus_sequence Bioroebe::ConsensusSequence
return_array_of_common_aminoacids Bioroebe
#return_array_of_one_letter_aminoacids Bioroebe::CommandlineApplication
return_array_of_sequence_matches Bioroebe
return_as_2D_table Bioroebe::BlosumParser
return_as_string Bioroebe::PalindromeGenerator
#return_available_vectors Bioroebe::Shell
#return_average_residue_weight Bioroebe::DisplayAminoacidTable
#return_cheerful_person Bioroebe::CommandlineApplication
#return_chunked_display Bioroebe::CommandlineApplication
return_chunked_display Bioroebe
#return_chunked_numbered_and_properly_spaced_sequence Bioroebe::GenbankFlatFileFormatGenerator
#return_codons Bioroebe::ConvertAminoacidToDNA
#return_colour_for_nucleotides Bioroebe::ColoursForBase
#return_colour_for_the_dna_sequence Bioroebe::ShowNucleotideSequence
#return_colourized_start_codon Bioroebe::CountAmountOfNucleotides
#return_colourized_truncated_at_message Bioroebe::CountAmountOfNucleotides
#return_commandline_arguments_as_string Bioroebe::CommandlineArguments
#return_commandline_arguments_that_are_not_files Bioroebe::CommandlineArguments
#return_complement Bioroebe::Shell
return_composition_from_this_aminoacid_sequence Bioroebe
return_composition_hash Bioroebe::CountAmountOfAminoacids
return_consensus_sequence_of Bioroebe
#return_current_date Bioroebe::GenbankFlatFileFormatGenerator
return_current_day_month_year Bioroebe
return_current_hours_minutes_seconds Bioroebe
#return_current_hours_minutes_seconds Bioroebe::Taxonomy
#return_dataset_based_on_this_sequence Bioroebe::GUI::Gtk::NucleotideAnalyser
#return_dataset_from_codon_table Bioroebe::ShowThisCodonTable
return_default_CSS_rules_to_use Bioroebe::Colourize
#return_default_GFP_sequence Bioroebe::Shell
#return_default_submit_button Bioroebe::EmbeddableInterface
#return_dependencies Bioroebe::Taxonomy::Interactive
#return_dna_nucleotides Bioroebe::Shell
#return_dna_sequence_as_sequence_object Bioroebe::Shell
#return_dna_sequence_label Bioroebe::GUI::DnaToReverseComplementWidgetModule
return_entries_in_the_current_directory Bioroebe::Shell
#return_entries_without_two_leading_hyphens Bioroebe::CommandlineArguments
return_every_substring_from_this_sequence Bioroebe
#return_explanation_of_how_to_use_the_aminoacid_conversion Bioroebe::EmbeddableInterface
#return_explanation_of_how_to_use_the_aminoacid_conversion Bioroebe::Sinatra
return_fasta_entry_with_the_highest_gc_content Bioroebe
#return_fasta_files_in_the_log_directory Bioroebe::Shell
return_fasta_sequence_from_this_pdb_file Bioroebe
return_fasta_subsection_of_this_file Bioroebe
#return_fill_up_to Bioroebe::GUI::Gtk::Alignment
#return_five_prime_leader Bioroebe::ShowNucleotideSequence
#return_form_for_blosum_action Bioroebe::EmbeddableInterface
#return_form_for_codon_frequency_of_this_string Bioroebe::EmbeddableInterface
#return_form_for_compseq_action Bioroebe::EmbeddableInterface
#return_form_for_is_a_palindrome_action Bioroebe::EmbeddableInterface
#return_form_for_mirror_repeat_action Bioroebe::EmbeddableInterface
#return_form_for_n_stop_codons_in_this_sequence Bioroebe::EmbeddableInterface
#return_form_for_palindromes_action Bioroebe::EmbeddableInterface
#return_form_for_reverse_complement_action Bioroebe::EmbeddableInterface
#return_form_for_shuffleseq_action Bioroebe::EmbeddableInterface
#return_form_for_to_aa_action Bioroebe::EmbeddableInterface
#return_form_for_to_aa_action Bioroebe::Sinatra
#return_form_for_to_dna_action Bioroebe::EmbeddableInterface
#return_full_lineage_of Bioroebe::Taxonomy
#return_gemspec_file Bioroebe::Taxonomy::Interactive
#return_hbox4 Bioroebe::GUI::LevenstheinDistanceModule
#return_hbox_containing_the_edit_distance Bioroebe::GUI::LevenstheinDistanceModule
#return_header_codon_frequency_of_this_string Bioroebe::EmbeddableInterface
#return_header_for_palindromes Bioroebe::EmbeddableInterface
#return_header_random_aminoacids Bioroebe::EmbeddableInterface
#return_header_to_aminoacid_conversion Bioroebe::EmbeddableInterface
#return_header_to_aminoacid_conversion Bioroebe::Sinatra
#return_header_to_chunked_display Bioroebe::EmbeddableInterface
#return_horizontal_bar Bioroebe::ShowOrf
#return_how_many_nucleotides_this_sequence_contains Bioroebe::GUI::Gtk::NucleotideAnalyser
return_illumina_offset Bioroebe
#return_index_of_hyperlinks Bioroebe::EmbeddableInterface
#return_instructions Bioroebe::Taxonomy::Interactive
#return_intro_for_blosum Bioroebe::EmbeddableInterface
#return_intro_for_compseq Bioroebe::EmbeddableInterface
#return_intro_for_mirror_repeat_conversion Bioroebe::EmbeddableInterface
#return_intro_for_n_stop_codons_in_this_sequence Bioroebe::EmbeddableInterface
#return_intro_for_reverse_complement_conversion Bioroebe::EmbeddableInterface
#return_intro_for_shuffleseq Bioroebe::EmbeddableInterface
#return_intro_for_to_dna_conversion Bioroebe::EmbeddableInterface
#return_login_file Bioroebe::Taxonomy::Interactive
return_long_aminoacid_name Bioroebe
return_longest_ORF_from_this_sequence Bioroebe
return_longest_substring_via_LCS_algorithm Bioroebe
#return_match_token Bioroebe::SimpleStringComparer
return_n_ORFs_in_this_sequence Bioroebe
#return_n_ORFs_in_this_sequence Bioroebe::DisplayOpenReadingFrames
#return_n_negatively_charged_residues Bioroebe::DisplayAminoacidTable
#return_n_positively_charged_residues Bioroebe::DisplayAminoacidTable
return_n_repeats Bioroebe
return_new_filename_based_on_fasta_identifier Bioroebe
#return_non_match_token Bioroebe::SimpleStringComparer
return_nucleotide_sequence_as_ten_nucleotides_chunks Bioroebe
#return_nucleotide_sequence_as_ten_nucleotides_chunks Bioroebe::GenbankFlatFileFormatGenerator
#return_numbers_based_on_this_input Bioroebe::ShowOrf
#return_one_to_ten Bioroebe::CheckForMismatches
#return_original_sequence Bioroebe::RestrictionEnzyme
#return_paragraph_of_hyperlinks Bioroebe::EmbeddableInterface
#return_paragraph_of_hyperlinks Bioroebe::Sinatra
#return_possibly_truncated_input Bioroebe::CalculateMeltingTemperature
#return_properly_formated_spacer_tokens Bioroebe::ShowOrf
#return_pwd Bioroebe::Base
#return_pwd Bioroebe::Shell
#return_random_aminoacid Bioroebe::Shell
return_random_aminoacid_from_this_prosite_pattern Bioroebe
return_random_codon_sequence_for_this_aminoacid_sequence Bioroebe
return_random_nucleotide Bioroebe
#return_random_nucleotide Bioroebe::Shell
#return_random_restriction_enzyme Bioroebe::Shell
#return_regex_with_startcodons Bioroebe::AlignOpenReadingFrames
return_restriction_enzyme_sequence_and_cut_position Bioroebe
#return_reverse_complement_to_that_dna_sequence Bioroebe::GUI::DnaToReverseComplementWidgetModule
#return_reverse_dna_string Bioroebe::Shell
return_sanger_offset Bioroebe
return_sequence Bioroebe::ColourizeSequence
return_sequence_from_this_file Bioroebe
#return_sequence_from_this_number Bioroebe::Shell
return_sequence_that_is_cut_via_restriction_enzyme Bioroebe
#return_sequence_without_trailing_stop_codon Bioroebe::CountAmountOfAminoacids
#return_shared_code Bioroebe::Taxonomy::Interactive
return_short_aminoacid_letter_from_long_aminoacid_name Bioroebe
#return_short_filename Bioroebe::ParsePdbFile
#return_sinatra_method_for_compseq Bioroebe::EmbeddableInterface
#return_sinatra_to_chunked Bioroebe::EmbeddableInterface
#return_sinatra_to_chunked_with_arguments Bioroebe::EmbeddableInterface
#return_sinatra_to_dna Bioroebe::EmbeddableInterface
#return_sinatra_to_dna_with_arguments Bioroebe::EmbeddableInterface
#return_sinatra_to_rna_with_arguments Bioroebe::EmbeddableInterface
#return_size_sorted_hash Bioroebe::ParseFasta
return_sizeseq Bioroebe
return_solexa_offset Bioroebe
return_source_code_of_this_method Bioroebe
#return_spacer Bioroebe::ShowOrf
#return_spacer Bioroebe::MirrorRepeat
#return_string_nucleotides_or_aminoacids Bioroebe::Sequence
return_subsequence_based_on_indices Bioroebe
#return_taxonomy_file Bioroebe::Taxonomy::Interactive
#return_the_amount_of_nucleotides_in_short_form_on_a_single_line Bioroebe::CountAmountOfNucleotides
#return_the_checkbox_widget Bioroebe::GUI::Gtk::ThreeToOne
#return_the_edit_distance_label Bioroebe::GUI::LevenstheinDistanceModule
#return_the_first_line_of_this_file Bioroebe::Base
#return_the_first_row Bioroebe::GUI::Gtk::Alignment
#return_the_label_for_the_edit_distance Bioroebe::GUI::LevenstheinDistanceModule
return_the_most_likely_codon_sequence_for_this_aminoacid_sequence Bioroebe
#return_the_reverse_strand Bioroebe::PalindromeGenerator
#return_three_prime_leader Bioroebe::ShowNucleotideSequence
#return_truncated_dna_string Bioroebe::CountAmountOfNucleotides
#return_ubiquitin_sequence Bioroebe::CommandlineApplication
return_ubiquitin_sequence Bioroebe
#return_url_from_a_random_entry Bioroebe::ParseFrequencyTable
#return_vertical_token Bioroebe::ShowOrf
#return_view_string Bioroebe::EmbeddableInterface
#return_widget_containing_a_file_open_button Bioroebe::GUI::Gtk::ParsePdbFile
#return_widget_containing_the_filepath Bioroebe::GUI::Gtk::Sizeseq
#return_widget_containing_the_forward_primer_information Bioroebe::GUI::Gtk::PrimerDesignWidget
#return_widget_containing_the_reverse_primer_information Bioroebe::GUI::Gtk::PrimerDesignWidget
#return_widget_containing_the_toggle_buttons Bioroebe::GUI::Gtk::ShowCodonTable
#return_widget_containing_the_toolbox_images Bioroebe::GUI::Gtk::AminoacidComposition
#return_widget_containing_the_top_bar Bioroebe::GUI::Gtk::Sizeseq
#return_widget_in_the_second_row_starting_with_a_gtk_entry_widget Bioroebe::GUI::Gtk::RestrictionEnzymes
rev Bioroebe
rev Bioroebe::ColourSchemeDemo
#rev Bioroebe
rev Bioroebe::Pathways
#rev Bioroebe::ColoursForBase
#rev_for_coding_sequence Bioroebe::ColourizeSequence
#reveal_the_answer Bioroebe::Quiz::ThreeLetterToAminoacid
#reverse Bioroebe::RawSequence
#reverse! Bioroebe::RawSequence
#reverse_complement Bioroebe::ShowOrf
#reverse_complement Bioroebe::RawSequence
#reverse_complement Bioroebe::Shell
reverse_complement Bioroebe
reverse_sequence Bioroebe
#reverse_strand? Bioroebe::PalindromeGenerator
#reverse_translate Bioroebe::Protein
#reynolds? Bioroebe::SiRNA
rgb_percent_to_hex Bioroebe::ColourScheme::Score
#right_buffer? Bioroebe::GUI::ProteinToDNAModule
#right_entry? Bioroebe::GUI::Gtk::DnaToAminoacidWidget
rna_splicing Bioroebe
rnalfold Bioroebe
#round_to? Bioroebe::ParseFasta
#round_to_n_numbers? Bioroebe::CalculateGCContent
routes? Bioroebe::EmbeddableInterface
ruler Bioroebe
ruler_return_as_string Bioroebe
ruler_return_as_string_without_colours Bioroebe
#run Bioroebe::GUI::Gtk::ParsePdbFile
#run Bioroebe::ScanForRepeat
#run Bioroebe::ElectronMicroscopy::ParseCoordinates
#run Bioroebe::Dotplot
#run Bioroebe::GUI::Tk::ThreeToOne
#run Bioroebe::DetermineAntigenicAreas
#run Bioroebe::DisplayAminoacidTable
#run Bioroebe::CalculateThePositionSpecificScoringMatrix
#run Bioroebe::DownloadFasta
#run Bioroebe::ShowFastaStatistics
#run Bioroebe::AlignOpenReadingFrames
#run Bioroebe::SplitThisFastaFileIntoChromosomes
#run Bioroebe::GUI::AntiSenseStrand
#run Bioroebe::ShowRestrictionEnzymes
#run Bioroebe::RNALfoldWrapper
#run Bioroebe::ColourizeSequence
#run Bioroebe::ShowFastaHeaders
#run Bioroebe::Taxonomy::ParseFasta
#run Bioroebe::ProfilePattern
#run Bioroebe::AnalyseLocalDataset
#run Bioroebe::AutocorrectTheNameOfThisFastaFile
#run Bioroebe::PalindromeGenerator
#run Bioroebe::RestrictionEnzyme
#run Bioroebe::CompactFastaFile
#run Bioroebe::DnaToAminoacidSequence
#run Bioroebe::Taxonomy::Info
#run Bioroebe::ShowHydrophobicity
#run Bioroebe::Taxonomy::Interactive
#run Bioroebe::FetchFastaSequenceFromPdb
#run Bioroebe::FindGene
#run Bioroebe::GUI::Gtk::Snapgene
#run Bioroebe::ElectronMicroscopy::FixPosFile
run Bioroebe::GUI::Gtk::Sizeseq
#run Bioroebe::GenbankFlatFileFormatGenerator
#run Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#run Bioroebe::GUI::Gtk::Controller
run Bioroebe::GUI::LibUI::RandomSequence
#run Bioroebe::GUI::Gtk::Sizeseq
run Bioroebe::GUI::Gtk::DnaToAminoacidWidget
run Bioroebe::GUI::Gtk::Controller
#run Bioroebe::GUI::LibUI::RandomSequence
#run Bioroebe::GUI::Gtk::AminoacidComposition
#run Bioroebe::Punnet
#run Bioroebe::MirrorRepeat
#run Bioroebe::HammingDistance
#run Bioroebe::FindLongestSubstringViaLCSalgorithm
#run Bioroebe::CountAmountOfAminoacids
run Bioroebe::GUI::Gtk::AminoacidComposition
#run Bioroebe::Genome
#run Bioroebe::CodonPercentage
run Bioroebe::GUI::Gtk::Snapgene
#run Bioroebe::FastqFormatExplainer
#run Bioroebe::GUI::Gtk::FormatConverter
run Bioroebe::GUI::Gtk::FormatConverter
#run Bioroebe::Shell::Help
#run Bioroebe::GUI::CalculateCellNumbersOfBacteriaModule
#run Bioroebe::DetermineMissingNucleotidesPercentage
#run Bioroebe::DetectMinimalCodon
#run Bioroebe::GUI::Gtk::ThreeToOne
#run Bioroebe::Cell
#run Bioroebe::GUI::LibUI::LevenstheinDistance
run Bioroebe::GUI::LibUI::BlosumMatrixViewer
#run Bioroebe::GUI::LibUI::BlosumMatrixViewer
#run Bioroebe::ReverseComplement
run Bioroebe::GUI::Gtk::ThreeToOne
#run Bioroebe::ShowNucleotideSequence
#run Bioroebe::GUI::Jruby::BlosumMatrixViewer
#run Bioroebe::Pathways
#run Bioroebe::PossibleCodonsForThisAminoacid
#run Bioroebe::ElectronMicroscopy::ReadFileXMD
run Bioroebe::GUI::Gtk::ShowCodonTable
run Bioroebe::GUI::Gtk::ParsePdbFile
#run Bioroebe::DotAlignment
#run Bioroebe::CalculateGCContent
#run Bioroebe::GUI::Gtk::HammingDistance
run Bioroebe::GUI::Gtk::HammingDistance
#run Bioroebe::GUI::LibUI::DnaToAminoacidWidget
run Bioroebe::GUI::LibUI::DnaToAminoacidWidget
#run Bioroebe::GUI::Gtk::ProteinToDNA
#run Bioroebe::GUI::DnaToReverseComplementWidgetModule
run Bioroebe::GUI::Gtk::ProteinToDNA
#run Bioroebe::ReportSecondaryStructuresFromThisPdbFile
#run Bioroebe::CreateBatchEntrezFile
#run Bioroebe::Trypsin
run Bioroebe::Taxonomy::Interactive
#run Bioroebe::GUI::Gtk::ShowCodonTable
#run Bioroebe::GUI::Tk::AminoacidComposition
#run Bioroebe::ParseEMBL
#run Bioroebe::AnalyseGlycosylationPattern
#run Bioroebe::CheckForMismatches
#run Bioroebe::ColourizeHydrophilicAndHydrophobicAminoacids
#run Bioroebe::ComplementaryDnaStrand
#run Bioroebe::Taxonomy::Chart
#run Bioroebe::SimplifyFastaHeader
#run Bioroebe::Ncbi
run Bioroebe::GUI::Gtk::PrimerDesignWidget
#run Bioroebe::DownloadTaxonomyDatabase
#run Bioroebe::ShowCodonUsage
#run Bioroebe::GUI::Gtk::PrimerDesignWidget
#run Bioroebe::BlosumParser
#run Bioroebe::FindLongestSubstring
#run Bioroebe::GUI::Gtk::ShowCodonUsage
run Bioroebe::GUI::Gtk::LevenstheinDistance
#run Bioroebe::AminoacidSubstitution
#run Bioroebe::GUI::Gtk::LevenstheinDistance
run Bioroebe::GUI::Gtk::BlosumMatrixViewer
#run Bioroebe::GUI::Gtk::BlosumMatrixViewer
#run Bioroebe::ConvertAminoacidToDNA
run Bioroebe::GUI::Gtk::Gene
run Bioroebe::GUI::Gtk::ShowCodonUsage
#run Bioroebe::Levensthein
#run Bioroebe::ConsensusSequence
#run Bioroebe::GUI::Gtk::Gene
#run Bioroebe::Taxonomy::CheckAvailable
run Bioroebe::GUI::Gtk::CalculateCellNumbersOfBacteria
#run Bioroebe::DownloadFilesFromRebase
#run Bioroebe::SimpleStringComparer
#run Bioroebe::ShowOrf
#run Bioroebe::PalindromeFinder
#run Bioroebe::StrideParser
#run Bioroebe::GUI::Gtk::WwwFinder
run Bioroebe::GUI::Gtk::WwwFinder
#run Bioroebe::FastaDefline
#run Bioroebe::SanitizeNucleotideSequence
#run Bioroebe::Parser::GFF
#run Bioroebe::MoveFileToItsCorrectLocation
#run Bioroebe::GenbankParser
#run Bioroebe::ShowThisDNASequence
#run Bioroebe::FastaToYaml
#run Bioroebe::CreateAnnotationFormat
#run Bioroebe::GUI::LibUI::HammingDistance
run Bioroebe::GUI::LibUI::HammingDistance
#run Bioroebe::GUI::Tk::HammingDistance
#run Bioroebe::CountAmountOfNucleotides
#run Bioroebe::PhredQualityScoreTable
#run Bioroebe::Compseq
#run Bioroebe::GUI::Gtk::RandomSequence
#run Bioroebe::Alignment
#run Bioroebe::Shell
#run Bioroebe::GUI::LibUI::ShowCodonTable
#run Bioroebe::DisplayHowManyFastaEntriesAreInThisDirectory
#run Bioroebe::UsefulFormulas
run Bioroebe::GUI::LibUI::ShowCodonTable
#run Bioroebe::CalculateMeltingTemperature
#run Bioroebe::BiolangParser
#run Bioroebe::DisplayOpenReadingFrames
#run Bioroebe::DeduceAminoacidSequence
#run Bioroebe::CreateRandomAminoacids
#run Bioroebe::GUI::LibUI::ShowCodonUsage
#run Bioroebe::ShowThisCodonTable
run Bioroebe::GUI::Gtk::AntiSenseStrand
run Bioroebe::GUI::LibUI::Alignment
#run Bioroebe::AdvancedDotplot
#run Bioroebe::RGG_Scanner
#run Bioroebe::GUI::Tk::LevenstheinDistance
#run Bioroebe::GUI::LibUI::Alignment
#run Bioroebe::GUI::LibUI::ProteinToDNA
#run Bioroebe::ParsemmCIFFile
#run Bioroebe::ElectronMicroscopy::CoordinateAnalyzer
#run Bioroebe::MostLikelyNucleotideSequenceForThisAminoacidSequence
#run Bioroebe::GUI::Tk::BlosumMatrixViewer
#run Bioroebe::GUI::LibUI::ThreeToOne
#run Bioroebe::ParseFrequencyTable
#run Bioroebe::Permutations
#run Bioroebe::ElectronMicroscopy::GenerateEm2emFile
run Bioroebe::GUI::LibUI::ThreeToOne
#run Bioroebe::Taxonomy::IsDNA
#run Bioroebe::ParseFastq
#run Bioroebe::ElectronMicroscopy::FlipY
run Bioroebe::GUI::Gtk::RestrictionEnzymes
#run Bioroebe::GUI::Gtk::RestrictionEnzymes
#run Bioroebe::ParseTaxonomy
#run Bioroebe::DetermineOptimalCodons
#run Bioroebe::ElectronMicroscopy::SimpleStarFileGenerator
#run Bioroebe::Ruler
run Bioroebe::GUI::Gtk::DnaToReverseComplementWidget
#run Bioroebe::GUI::Gtk::DnaToReverseComplementWidget
#run Bioroebe::HelixWheel
#run Bioroebe::SanitizeCodonFrequency
#run Bioroebe::Quiz::ThreeLetterToAminoacid
#run Bioroebe::GUI::Gtk::FastaTableWidget
run Bioroebe::GUI::Gtk::NucleotideAnalyser
#run Bioroebe::ParseFasta
run Bioroebe::GUI::Gtk::FastaTableWidget
#run Bioroebe::GUI::Gtk::NucleotideAnalyser
#run Bioroebe::Palindrome2DStructure
#run Bioroebe::MatplotlibGenerator
#run Bioroebe::FastaParser
#run Bioroebe::GenomePattern
#run Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#run Bioroebe::ParsePdbFile
run Bioroebe::GUI::Gtk::Alignment
#run Bioroebe::LengthModifier
#run Bioroebe::GUI::Gtk::Alignment
#run Bioroebe::Compacter
#run2 Bioroebe::Dotplot
#run_connected? Bioroebe::Taxonomy::Interactive
#run_everything Bioroebe::HammingDistance
#run_everything Bioroebe::Taxonomy::ParseFasta
#run_everything Bioroebe::GUI::LibUI::DnaToAminoacidWidget
#run_everything Bioroebe::CreateRandomAminoacids
run_gtk_controller Bioroebe
run_interactive Bioroebe::Taxonomy::Interactive
#run_nls_search Bioroebe::Shell
#run_sizeseq Bioroebe::Shell
#run_sql_query Bioroebe::Shell
run_sql_query Bioroebe
#run_standalone? Bioroebe::Taxonomy::Interactive
#run_this_user_input Bioroebe::Shell
salt_adjusted_tm Bioroebe
#salt_adjusted_tm Bioroebe::Shell
#sanitize_body Bioroebe::ElectronMicroscopy::ReadFileXMD
#sanitize_data Bioroebe::ParseFasta
#sanitize_dataset Bioroebe::Sequence
#sanitize_header Bioroebe::ElectronMicroscopy::ReadFileXMD
sanitize_header Bioroebe::ElectronMicroscopy::ReadFileXMD
#sanitize_input Bioroebe::DetermineMissingNucleotidesPercentage
#sanitize_input Bioroebe::SanitizeCodonFrequency
#sanitize_input Bioroebe::SanitizeNucleotideSequence
#sanitize_input Bioroebe::Shell
#sanitize_input Bioroebe::ShowHydrophobicity
#sanitize_input Bioroebe::CreateBatchEntrezFile
#sanitize_nucleotide_sequence Bioroebe::Shell
sanitize_nucleotide_sequence Bioroebe
#sanitize_result Bioroebe::FastaParser
#sanitize_rna Bioroebe::Sequence
#sanitize_the_description Bioroebe::ParseFasta
#sanitize_the_sequence Bioroebe::GUI::Gtk::NucleotideAnalyser
sanitize_this_fasta_file Bioroebe
#sanitize_user_input Bioroebe::Taxonomy::Interactive
#sanitized_half_width Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#save Bioroebe::ParseFasta
#save_dataset Bioroebe::ElectronMicroscopy::SimpleStarFileGenerator
#save_dataset Bioroebe::ElectronMicroscopy::GenerateEm2emFile
#save_file? Bioroebe::Shell
#save_history_to_file Bioroebe::Shell
#save_html_file Bioroebe::FastaParser
#save_into_a_fasta_file Bioroebe::ParseFasta
#save_into_a_file Bioroebe::CreateAnnotationFormat
#save_into_a_yaml_file Bioroebe::BlosumParser
save_into_which_file? Bioroebe::Taxonomy
#save_my_file Bioroebe::Shell
#save_sequence_to_this_file Bioroebe::Sequence
#save_the_file? Bioroebe::ParseFasta
save_when_we_last_updated_the_database Bioroebe::Taxonomy
#save_where? Bioroebe::ElectronMicroscopy::SimpleStarFileGenerator
#say_goodbye Bioroebe::Shell
scale Bioroebe::SVG::Glyph
#scale? Bioroebe::SVG::Track
#scan Bioroebe::RawSequence
#scan_for_available_main_entries Bioroebe::BiolangParser
#scan_for_gff_files Bioroebe::Shell
#scan_for_leucine_zippers Bioroebe::Shell
#scan_for_mismatches Bioroebe::CheckForMismatches
scan_for_rgg_motifs Bioroebe
#scan_for_rgg_sequences Bioroebe::RGG_Scanner
#scan_info_directory Bioroebe::Taxonomy::CheckAvailable
#scan_or_parse_for_this_gff_file_or_any_gff_file Bioroebe::Shell
scan_this_input_for_startcodons Bioroebe
#score? Bioroebe::CalculateBlosumScore
#score? Bioroebe::Matrix
score_to_percent Bioroebe::ColourScheme::Score
score_to_rgb_hex Bioroebe::ColourScheme::Strand
score_to_rgb_hex Bioroebe::ColourScheme::Score
score_to_rgb_hex Bioroebe::ColourScheme::Hydropathy
score_to_rgb_hex Bioroebe::ColourScheme::Buried
score_to_rgb_hex Bioroebe::ColourScheme::Helix
score_to_rgb_hex Bioroebe::ColourScheme::Turn
scores Bioroebe::ColourScheme::Score
sdir Bioroebe
#sdir Bioroebe::ColoursForBase
#search Bioroebe::Biomart::Dataset
#search_for Bioroebe::Shell
#search_for? Bioroebe::Shell
#search_for_known_promoters Bioroebe::Shell
#search_for_nucleotide_sequence Bioroebe::Shell
#search_for_tata_consensus_sequence Bioroebe::Shell
#search_for_this_substring Bioroebe::ShowNucleotideSequence
#search_id Bioroebe::Taxonomy
#search_in_database_for_name Bioroebe::Taxonomy::Interactive
#search_in_localomes Bioroebe::Taxonomy::Interactive
#search_sequence_for_open_reading_frames Bioroebe::Shell
#second_argument? Bioroebe::Shell
#second_column? Bioroebe::GUI::Gtk::FastaTableWidget
#segment_height Bioroebe::SVG::MiniFeature
#select_commandline_arguments Bioroebe::CommandlineArguments
#select_entries_starting_with_two_hyphens Bioroebe::CommandlineArguments
#select_entry_3_4_5 Bioroebe::CreateAnnotationFormat
#select_key_and_answer Bioroebe::Quiz::ThreeLetterToAminoacid
#select_name_and_lineage_ids Bioroebe::Taxonomy::Interactive
#select_name_and_tax_id_and_lineage_ids Bioroebe::Taxonomy::Interactive
#select_name_and_tax_id_and_lineage_ids_and_path Bioroebe::Taxonomy::Interactive
#seq1? Bioroebe::GUI::Gtk::HammingDistance
#seq1? Bioroebe::DotAlignment
#seq1? Bioroebe::GUI::Tk::LevenstheinDistance
#seq1? Bioroebe::GUI::Tk::HammingDistance
#seq2? Bioroebe::GUI::Tk::LevenstheinDistance
#seq2? Bioroebe::GUI::Tk::HammingDistance
#seq2? Bioroebe::DotAlignment
#seq2? Bioroebe::GUI::Gtk::HammingDistance
#sequence Bioroebe::Taxonomy::ParseFasta
#sequence Bioroebe::ParseFasta
#sequence? Bioroebe::Palindrome2DStructure
#sequence? Bioroebe::ColourizeSequence
sequence? Bioroebe
#sequence? Bioroebe::Digestion
#sequence? Bioroebe::CalculateMeltingTemperature
#sequence? Bioroebe::GenbankParser
#sequence? Bioroebe::ParseEMBL
#sequence? Bioroebe::RGG_Scanner
#sequence_2 Bioroebe::Shell
#sequence_3 Bioroebe::Shell
#sequence_4 Bioroebe::Shell
#sequence_5 Bioroebe::Shell
#sequence_6 Bioroebe::Shell
#sequence_and_accession_number Bioroebe::Taxonomy::ParseFasta
#sequence_for_display? Bioroebe::ShowNucleotideSequence
sequence_from_file Bioroebe::Sequence
#sequence_object Bioroebe::ParseFasta
#sequences? Bioroebe::ParseFasta
#sequences? Bioroebe::GenbankParser
#set_active_chromosome Bioroebe::SplitThisFastaFileIntoChromosomes
#set_amino_acid_sequence Bioroebe::CreateRandomAminoacids
#set_aminoacid_sequence Bioroebe::GUI::ProteinToDNAModule
#set_aminoacid_sequence Bioroebe::ConvertAminoacidToDNA
#set_aminoacid_sequence Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#set_aminoacid_sequence Bioroebe::DeduceAminoacidSequence
#set_aminoacid_sequence Bioroebe::GUI::Gtk::Controller
#set_aminoacids Bioroebe::Shell
#set_array_all_discovered_codons Bioroebe::DeduceAminoacidSequence
set_base_directory Bioroebe
#set_be_verbose Bioroebe::CommandlineApplication
#set_be_verbose_and_report_the_sequence Bioroebe::ParseFasta
#set_blosum_file_to_use Bioroebe::BlosumParser
#set_body Bioroebe::ParsePdbFile
#set_cmdline Bioroebe::GenomePattern
#set_codon_table Bioroebe::Shell
#set_codon_table Bioroebe::ShowThisCodonTable
set_codon_table_in_use Bioroebe
set_colour Bioroebe::Shell
#set_colourize_start_codon_in_this_colour Bioroebe::ColourizeSequence
#set_commandline_arguments Bioroebe::GUI::Tk::BlosumMatrixViewer
#set_commandline_arguments Bioroebe::CommandlineArguments
#set_commandline_arguments Bioroebe::ParseFrequencyTable
#set_commandline_arguments Bioroebe::GUI::Tk::ThreeToOne
#set_commandline_arguments Bioroebe::SplitThisFastaFileIntoChromosomes
#set_commandline_arguments Bioroebe::GUI::Tk::AminoacidComposition
#set_commandline_arguments Bioroebe::Taxonomy::Interactive
#set_commandline_input Bioroebe::CheckForMismatches
#set_cuts_at Bioroebe::RestrictionEnzyme
#set_data Bioroebe::CalculateGCContent
#set_data Bioroebe::CheckForMismatches
#set_data Bioroebe::ParseFasta
#set_database Bioroebe::Taxonomy::Interactive
set_default_colour Bioroebe
#set_default_highlight_colour Bioroebe::Shell
#set_default_length Bioroebe::Shell
#set_delegate_string Bioroebe::Protein
#set_description Bioroebe::Sequence
#set_dna Bioroebe::Sequence
#set_dna_sequence Bioroebe::DisplayOpenReadingFrames
#set_dna_sequence Bioroebe::GUI::DnaToReverseComplementWidgetModule
#set_dna_sequence Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#set_dna_string Bioroebe::CountAmountOfNucleotides
#set_download_directory Bioroebe::Shell
#set_edit_distance Bioroebe::GUI::LevenstheinDistanceModule
#set_entry1 Bioroebe::GUI::LevenstheinDistanceModule
#set_entry2 Bioroebe::GUI::LevenstheinDistanceModule
#set_exit_gracefully Bioroebe::Shell
#set_file Bioroebe::ElectronMicroscopy::ParseCoordinates
#set_file_location Bioroebe::BiolangParser
#set_first Bioroebe::ParseFrequencyTable
#set_first Bioroebe::Digestion
#set_fix_this_pos_file Bioroebe::ElectronMicroscopy::FixPosFile
#set_format_how Bioroebe::DeduceAminoacidSequence
#set_frame_1 Bioroebe::ShowOrf
#set_frame_2 Bioroebe::ShowOrf
#set_frame_3 Bioroebe::ShowOrf
#set_full_url Bioroebe::FastaParser
#set_gap_cost Bioroebe::Levensthein
#set_group_together_n_nucleotides Bioroebe::Ruler
#set_header Bioroebe::ParsePdbFile
#set_header_title_and_body Bioroebe::ParsePdbFile
#set_highlight_colour Bioroebe::Shell
#set_highlight_colour_or_search_for_this_sequence Bioroebe::Shell
#set_how_many_amino_acids Bioroebe::AlphaHelix
#set_how_many_aminoacids Bioroebe::CreateRandomAminoacids
#set_identifier Bioroebe::Compseq
#set_input Bioroebe::SanitizeNucleotideSequence
#set_input Bioroebe::DisplayAminoacidTable
#set_input Bioroebe::SanitizeCodonFrequency
#set_input Bioroebe::DetermineAntigenicAreas
#set_input Bioroebe::GUI::DnaToReverseComplementWidgetModule
#set_input Bioroebe::ShowThisDNASequence
#set_input Bioroebe::Compacter
#set_input Bioroebe::DetermineMissingNucleotidesPercentage
#set_input Bioroebe::CreateBatchEntrezFile
#set_input Bioroebe::ShowFastaHeaders
#set_input Bioroebe::Quiz::ThreeLetterToAminoacid
#set_input Bioroebe::GenbankFlatFileFormatGenerator
#set_input Bioroebe::Taxonomy::IsDNA
#set_input Bioroebe::Taxonomy::CheckAvailable
#set_input Bioroebe::ShowCodonUsage
#set_input Bioroebe::ShowHydrophobicity
#set_input Bioroebe::DetectMinimalCodon
#set_input Bioroebe::FindGene
#set_input Bioroebe::PossibleCodonsForThisAminoacid
#set_input Bioroebe::Punnet
#set_input Bioroebe::Ncbi
#set_input Bioroebe::Compseq
#set_input Bioroebe::HammingDistance
#set_input Bioroebe::AlignOpenReadingFrames
#set_input_file Bioroebe::CreateAnnotationFormat
#set_input_file Bioroebe::Parser::GFF
#set_input_file Bioroebe::ParseFasta
#set_input_sequence Bioroebe::ShowOrf
#set_input_sequences Bioroebe::ConsensusSequence
#set_jumper_directory Bioroebe::Shell
#set_keywords Bioroebe::ParsePdbFile
#set_last_line Bioroebe::SplitThisFastaFileIntoChromosomes
#set_left_entry Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#set_length_of_the_palindrome Bioroebe::PalindromeGenerator
#set_location Bioroebe::Taxonomy::ParseFasta
#set_location Bioroebe::Taxonomy::Info
#set_locus Bioroebe::Shell
#set_log_dir Bioroebe::Shell
set_log_directory Bioroebe
#set_main_entry Bioroebe::GUI::Gtk::FormatConverter
#set_main_entry Bioroebe::GUI::Gtk::AminoacidComposition
#set_main_entry Bioroebe::GUI::Gtk::NucleotideAnalyser
#set_main_input Bioroebe::GUI::Gtk::RandomSequence
#set_main_input_sequence_and_evaluate_it Bioroebe::GUI::Gtk::AminoacidComposition
#set_main_input_sequence_and_evaluate_it Bioroebe::GUI::Gtk::FormatConverter
#set_match Bioroebe::AdvancedDotplot
#set_match_cost Bioroebe::Levensthein
#set_match_token Bioroebe::SimpleStringComparer
#set_minimum_size Bioroebe::GUI::Gtk::HammingDistance
#set_mismatch_cost Bioroebe::Levensthein
#set_mode Bioroebe::Shell
#set_modify_this_position Bioroebe::AminoacidSubstitution
#set_name Bioroebe::Gene
#set_name_of_gene Bioroebe::Shell
#set_name_of_the_gene Bioroebe::DNA
#set_name_of_the_locus Bioroebe::GenbankFlatFileFormatGenerator
#set_name_of_the_restriction_enzyme Bioroebe::RestrictionEnzyme
#set_nucleotide_sequence Bioroebe::Shell
#set_nucleotide_sequence Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#set_padding Bioroebe::Shell
#set_padding Bioroebe::ShowNucleotideSequence
#set_parent_widget Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#set_parent_widget Bioroebe::GUI::Gtk::AminoacidComposition
#set_parent_widget Bioroebe::GUI::Gtk::FormatConverter
#set_path Bioroebe::Taxonomy::Interactive
#set_pdb_files Bioroebe::ParsePdbFile
#set_percentage_of Bioroebe::CountAmountOfNucleotides
#set_permutation_length Bioroebe::Permutations
set_pgpassword Bioroebe
#set_pgpassword Bioroebe::Taxonomy::Shared
#set_possible_codons Bioroebe::PossibleCodonsForThisAminoacid
#set_prepend_this_to_the_mrc_file_path Bioroebe::ElectronMicroscopy::ReadFileXMD
#set_protein Bioroebe::Sequence
#set_random_aminoacids Bioroebe::Shell
#set_raw_sequence Bioroebe::RawSequence
#set_result Bioroebe::DetectMinimalCodon
#set_result Bioroebe::DnaToAminoacidSequence
#set_result Bioroebe::RGG_Scanner
#set_result Bioroebe::FetchFastaSequenceFromPdb
#set_results Bioroebe::CalculateGCContent
#set_reverse_complement Bioroebe::GUI::DnaToReverseComplementWidgetModule
#set_right_entry Bioroebe::GUI::Gtk::DnaToAminoacidWidget
#set_rna Bioroebe::Sequence
#set_round_to Bioroebe::ParseFasta
#set_round_to_n_numbers Bioroebe::CalculateGCContent
#set_save_file Bioroebe::Shell
#set_save_file Bioroebe::Sequence
#set_save_here Bioroebe::ElectronMicroscopy::SimpleStarFileGenerator
#set_scan_for_this_repeat Bioroebe::ScanForRepeat
#set_score Bioroebe::CalculateBlosumScore
#set_search_for Bioroebe::Shell
#set_search_for_this_file Bioroebe::FetchFastaSequenceFromPdb
#set_sequence Bioroebe::CalculateMeltingTemperature
#set_sequence Bioroebe::Sequence
#set_sequence Bioroebe::ColourizeSequence
#set_sequence Bioroebe::Palindrome2DStructure
#set_sequence Bioroebe::GUI::Gtk::Gene
#set_sequence_2 Bioroebe::Shell
#set_sequence_3 Bioroebe::Shell
#set_sequence_4 Bioroebe::Shell
#set_sequence_5 Bioroebe::Shell
#set_sequence_6 Bioroebe::Shell
#set_sequence_for_display Bioroebe::ShowNucleotideSequence
#set_show_the_rna_sequence Bioroebe::DeduceAminoacidSequence
#set_show_these_frames Bioroebe::ShowOrf
#set_sodium_concentration Bioroebe::CalculateMeltingTemperatureForMoreThanThirteenNucleotides
#set_split_at_n_characters Bioroebe::DisplayOpenReadingFrames
#set_start_codon Bioroebe::Shell
set_start_codon Bioroebe
set_start_codons Bioroebe
set_stop_codons Bioroebe
#set_string Bioroebe::CountAmountOfAminoacids
#set_string1 Bioroebe::AdvancedDotplot
#set_string1 Bioroebe::FindLongestSubstring
#set_string1 Bioroebe::Levensthein
#set_string1 Bioroebe::FindLongestSubstringViaLCSalgorithm
#set_string1 Bioroebe::SimpleStringComparer
#set_string2 Bioroebe::FindLongestSubstringViaLCSalgorithm
#set_string2 Bioroebe::Levensthein
#set_string2 Bioroebe::AdvancedDotplot
#set_string2 Bioroebe::FindLongestSubstring
#set_string2 Bioroebe::SimpleStringComparer
#set_string_to_search Bioroebe::PalindromeFinder
#set_taxonomy_id Bioroebe::Taxonomy::Info
#set_test_these_strings Bioroebe::CalculateThePositionSpecificScoringMatrix
#set_this_file Bioroebe::StrideParser
#set_this_file Bioroebe::ParsePdbFile
#set_this_sequence Bioroebe::ColourizeHydrophilicAndHydrophobicAminoacids
#set_this_xmd_file Bioroebe::ElectronMicroscopy::ReadFileXMD
#set_tif_file Bioroebe::ElectronMicroscopy::GenerateEm2emFile
#set_title Bioroebe::ShowThisCodonTable
#set_try_to_identify_purines_and_pyrimidines Bioroebe::PossibleCodonsForThisAminoacid
#set_type Bioroebe::Sequence
#set_url Bioroebe::ParseTaxonomy
#set_url Bioroebe::DownloadTaxonomyDatabase
#set_use_colours Bioroebe::ColoursForBase
#set_use_frame_number Bioroebe::DnaToAminoacidSequence
#set_use_the_codon_table_for Bioroebe::DnaToAminoacidSequence
#set_use_this_codon_table Bioroebe::MostLikelyNucleotideSequenceForThisAminoacidSequence
#set_use_this_codon_table Bioroebe::ShowThisCodonTable
set_use_this_codon_table Bioroebe
#set_use_this_codon_table Bioroebe::CodonPercentage
#set_use_this_file Bioroebe::GUI::Gtk::Sizeseq
#set_use_this_prefix Bioroebe::SplitThisFastaFileIntoChromosomes
#set_use_this_prompt Bioroebe::Shell
#set_use_this_sequence Bioroebe::Ruler
#set_use_this_url Bioroebe::ParseFrequencyTable
set_use_this_yaml_engine= Bioroebe
#set_word_size Bioroebe::Compseq
#set_work_on_this_file Bioroebe::GenbankParser
#set_work_on_this_file Bioroebe::AminoacidSubstitution
#set_x_axis Bioroebe::Dotplot
#set_xclip Bioroebe::Shell
#set_y_axis Bioroebe::Dotplot
#setup_dataset Bioroebe::ElectronMicroscopy::GenerateEm2emFile
#setup_readline Bioroebe::Shell
sfancy Bioroebe
#sfancy Bioroebe::Shell
#sfancy Bioroebe::ColoursForBase
sfancy Bioroebe::Sinatra
#sfile Bioroebe::ColoursForBase
#sfile Bioroebe::Shell
sfile Bioroebe
#shall_we_upcase? Bioroebe::Sequence
#shared_reset Bioroebe::GUI::ProteinToDNAModule
shell Bioroebe
#short_headers? Bioroebe::ParseFasta
#shorten_aminoacid Bioroebe::Shell
#show Bioroebe::Shell
show Bioroebe::AminoacidsMassTable
#show_2D_dotplot Bioroebe::Shell
#show_GFP_sequence Bioroebe::Shell
#show_a_possible_sequence? Bioroebe::DeduceAminoacidSequence
#show_agarose_table Bioroebe::Shell
#show_all_codon_tables Bioroebe::Shell
#show_all_deducible_aminoacid_sequences Bioroebe::Shell
#show_all_dmp_files Bioroebe::Shell
#show_all_eukarya Bioroebe::Taxonomy::Interactive
#show_all_pathways Bioroebe::Shell
show_all_pathways Bioroebe::Pathways
#show_all_possible_codons Bioroebe::DeduceAminoacidSequence
#show_all_prokarya Bioroebe::Taxonomy::Interactive
#show_all_yaml_files Bioroebe::Shell
#show_alu_sequence Bioroebe::Shell
#show_aminoacid_sequence Bioroebe::Shell
show_aminoacids_mass_table Bioroebe
#show_aminoacids_mass_table Bioroebe::Shell
#show_aminoacids_residues Bioroebe::Shell
#show_and_calculate_weight_of_dna_string Bioroebe::Shell
#show_and_calculate_weight_of_dna_string_or_aminoacid_sequence Bioroebe::Shell
show_as_2D_table Bioroebe::BlosumParser
show_as_2D_table Bioroebe::Blosum
#show_as_three_letter_aminoacid_sequence? Bioroebe::DnaToAminoacidSequence
show_atomic_composition Bioroebe
#show_available_vectors Bioroebe::Shell
#show_average_weight_of_a_nucleotide Bioroebe::Shell
#show_average_weight_of_an_aminoacid Bioroebe::Shell
#show_blosum_matrix Bioroebe::Shell
#show_body Bioroebe::ElectronMicroscopy::ReadFileXMD
#show_both_dna_strands Bioroebe::Shell
#show_ccaat_sites Bioroebe::Shell
#show_changelog Bioroebe::Taxonomy::Interactive
#show_chromosome_table Bioroebe::Shell
#show_codon_piped_sequence Bioroebe::Shell
#show_codon_table Bioroebe::Shell
show_codon_tables Bioroebe
#show_codon_usage Bioroebe::Shell
#show_codons_of_this_aminoacid_or_show_kazusa_codon Bioroebe::Shell
#show_commandline_options Bioroebe::Shell
#show_complement Bioroebe::Shell
show_complementary_dna_strand Bioroebe
#show_composition Bioroebe::Shell
show_composition Bioroebe::CountAmountOfNucleotides
#show_config_dir Bioroebe::Shell
#show_configuration Bioroebe::Taxonomy::Interactive
#show_copyright_clause Bioroebe::Shell
#show_cpg_islands Bioroebe::Shell
show_current_time_and_date Bioroebe::Taxonomy
#show_current_time_and_date Bioroebe::Taxonomy
#show_date Bioroebe::Shell
#show_debug_information Bioroebe::ProfilePattern
#show_directory_content Bioroebe::Shell
#show_disulfides Bioroebe::Shell
#show_dna_string Bioroebe::Shell
#show_download_dir Bioroebe::Shell
#show_editor_in_use Bioroebe::Shell
#show_every_pathway Bioroebe::Pathways
show_exon_statistics Bioroebe
#show_explanation Bioroebe::ColourizeSequence
show_fasta_header Bioroebe
#show_fasta_headers Bioroebe::Shell
show_fasta_statistics Bioroebe
#show_fastq_quality_score_table Bioroebe::Shell
#show_file_listing Bioroebe::Shell
#show_first_orf Bioroebe::Shell
#show_first_string Bioroebe::Levensthein
show_formulas Bioroebe::CalculateMeltingTemperature
#show_frame1 Bioroebe::DisplayOpenReadingFrames
#show_frame2 Bioroebe::DisplayOpenReadingFrames
#show_frame3 Bioroebe::DisplayOpenReadingFrames
#show_frame_1? Bioroebe::ShowOrf
#show_frame_2? Bioroebe::ShowOrf
#show_frame_3? Bioroebe::ShowOrf
#show_header_of Bioroebe::Shell
#show_header_of_this_pdb_file Bioroebe::Shell
#show_help Bioroebe::ParseTaxonomy
#show_help Bioroebe::ShowFastaStatistics
#show_help Bioroebe::Taxonomy
#show_help Bioroebe::DnaToAminoacidSequence
#show_help Bioroebe::SplitThisFastaFileIntoChromosomes
#show_help Bioroebe::Levensthein
#show_help Bioroebe::ParseFasta
#show_help Bioroebe::CalculateMeltingTemperature
#show_help Bioroebe::MirrorRepeat
#show_help Bioroebe::Shell::Help
#show_help Bioroebe::ComplementaryDnaStrand
#show_help Bioroebe::Shell
#show_help Bioroebe::ShowOrf
#show_hint_how_to_use_the_local_sequences Bioroebe::Shell
#show_histone_table Bioroebe::Shell
#show_history Bioroebe::Shell
#show_html_colours Bioroebe::Shell
#show_human_genome_version Bioroebe::Shell
#show_hydropathy_table Bioroebe::Shell
#show_important_directories Bioroebe::Taxonomy::CheckAvailable
#show_important_directories Bioroebe::Taxonomy::Interactive
#show_info Bioroebe::Taxonomy::Info
#show_info_output Bioroebe::Taxonomy::Info
#show_information_about_the_gff_format Bioroebe::Shell
#show_jumper_directories Bioroebe::Shell
#show_known_nls_sequences Bioroebe::Shell
#show_last_command Bioroebe::Taxonomy::Interactive
#show_last_downloaded_file Bioroebe::Shell
#show_last_input Bioroebe::Shell
#show_length_of_alpha_helix Bioroebe::Shell
#show_likely_fasta_file_if_it_can_be_found Bioroebe::Taxonomy::Info
#show_lineage_from_localome_table Bioroebe::Taxonomy::Interactive
#show_local_sequences Bioroebe::Shell
#show_log_dir Bioroebe::Shell
#show_login_information Bioroebe::Taxonomy::Interactive
#show_main_string Bioroebe::GenbankFlatFileFormatGenerator
show_matrix Bioroebe::Blosum
#show_mnemo Bioroebe::Shell
#show_molweight Bioroebe::Shell
#show_my_fasta_file Bioroebe::Shell
show_n_glycosylation_motifs Bioroebe
#show_name_of_the_gene Bioroebe::Shell
#show_nodes_table Bioroebe::Taxonomy::Interactive
#show_nucleotide_sequence? Bioroebe::Shell
#show_nucleotides_table Bioroebe::Shell
#show_numbered_header Bioroebe::Levensthein
#show_numbered_nucleotide_positions Bioroebe::Shell
#show_oligo_length_three Bioroebe::Shell
#show_oligo_length_two Bioroebe::Shell
#show_ori_sequences Bioroebe::Shell
#show_password Bioroebe::Taxonomy::Shared
#show_port Bioroebe::Taxonomy::Interactive
#show_position_for_the_main_sequence Bioroebe::Shell
#show_position_of_sequence Bioroebe::Shell
#show_possible_codons_for_this_aminoacid Bioroebe::Shell
#show_possible_phosphorylation_sites Bioroebe::Shell
#show_postgres_size Bioroebe::Taxonomy::Interactive
#show_protein_composition Bioroebe::Shell
#show_readline_completions Bioroebe::Shell
show_remote_urls_to_the_NCBI_taxonomy_webpage Bioroebe::Taxonomy
#show_resources_about_the_horseradish_peroxidase Bioroebe::Shell
#show_reste Bioroebe::Shell
#show_restriction_enzymes Bioroebe::Shell
show_restriction_enzymes Bioroebe
#show_restriction_table Bioroebe::Shell
#show_result Bioroebe::Compseq
#show_result Bioroebe::HelixWheel
#show_reverse_dna_string Bioroebe::Shell
#show_reverse_frame_1? Bioroebe::ShowOrf
#show_reverse_frame_2? Bioroebe::ShowOrf
#show_reverse_frame_3? Bioroebe::ShowOrf
#show_rna_sequence Bioroebe::Shell
#show_ruler? Bioroebe::ShowNucleotideSequence
#show_save_file Bioroebe::Shell
#show_scientific_name_of Bioroebe::Taxonomy::Interactive
#show_second_string Bioroebe::Levensthein
#show_segments Bioroebe::Shell
#show_seq_1 Bioroebe::Shell
#show_seq_2 Bioroebe::Shell
#show_seq_3 Bioroebe::Shell
#show_seq_4 Bioroebe::Shell
#show_seq_5 Bioroebe::Shell
#show_seq_6 Bioroebe::Shell
#show_sequence Bioroebe::ColourizeSequence
#show_sequence_in_splitted_form Bioroebe::Shell
#show_sequence_with_a_ruler Bioroebe::Shell
#show_shared_code_location Bioroebe::Taxonomy::Interactive
#show_short_help Bioroebe::Taxonomy::Interactive
#show_sigma_tutorial Bioroebe::Shell
#show_similar_entries_in_aa_dir Bioroebe::Taxonomy::CheckAvailable
#show_sixpack_alignment Bioroebe::Shell
#show_sorted_peptide_fragments Bioroebe::Trypsin
#show_sql_commands Bioroebe::Taxonomy::Interactive
#show_sql_commands_only Bioroebe::Taxonomy::Interactive
#show_start_and_stop_codons Bioroebe::Shell
#show_startup_information Bioroebe::Shell
#show_statistics Bioroebe::CountAmountOfAminoacids
#show_t_phages Bioroebe::Shell
#show_table_names Bioroebe::Taxonomy::Interactive
#show_taxid Bioroebe::Shell
#show_the_aminoacid_sequence_in_steelblue_and_orange_colour Bioroebe::DeduceAminoacidSequence
#show_the_aminoacids_frequencies Bioroebe::Shell
#show_the_complementary_sequence Bioroebe::ShowThisDNASequence
#show_the_header Bioroebe::DeduceAminoacidSequence
#show_the_input_sequence Bioroebe::ShowThisDNASequence
#show_the_intro_for_this_class Bioroebe::DisplayOpenReadingFrames
#show_the_leader? Bioroebe::Shell
#show_the_rna_sequence? Bioroebe::DeduceAminoacidSequence
#show_the_trailer? Bioroebe::Shell
#show_the_translated_protein_sequence? Bioroebe::ParseFasta
#show_the_weight_of_some_common_proteins Bioroebe::Shell
#show_the_weight_of_the_four_individual_nucleotides Bioroebe::Shell
#show_this_frame Bioroebe::ShowOrf
show_this_pathway Bioroebe::Pathways
#show_this_sequence_padded Bioroebe::Shell
#show_this_subsequence Bioroebe::Shell
#show_three_prime_colourized_sequence Bioroebe::CheckForMismatches
#show_time_now Bioroebe::Taxonomy::Shared
show_time_now Bioroebe
#show_title Bioroebe::ParseTaxonomy
#show_todo_file Bioroebe::Shell
#show_type_of_all_info_files Bioroebe::Taxonomy::Interactive
#show_usage Bioroebe::Punnet
#show_useful_URLs Bioroebe::Shell
#show_weight_of_this_nucleotide Bioroebe::Shell
#show_welcome_message Bioroebe::Shell
#show_x_axis Bioroebe::Dotplot
#show_xorg_buffer Bioroebe::Shell
showorf Bioroebe
#showorf Bioroebe::Shell
#shuffle Bioroebe::RawSequence
#shuffle_main_string Bioroebe::Shell
shuffleseq Bioroebe
#silent_startup? Bioroebe::Shell
#silently_determine_the_aminoacid_sequence Bioroebe::ParsePdbFile
#silently_update_ncbi_database Bioroebe::Taxonomy::Interactive
simp Bioroebe
#simp Bioroebe::Shell
#simp Bioroebe::ColoursForBase
simplify_fasta_header Bioroebe
#simplify_header Bioroebe::ParseFasta
#simulate_enter_click Bioroebe::GUI::Gtk::FormatConverter
#simulate_enter_click Bioroebe::GUI::Gtk::AminoacidComposition
#sin Bioroebe::HelixWheel
#size? Bioroebe::Sequence
#size? Bioroebe::RawSequence
sizeseq Bioroebe
#slightly_smaller_font? Bioroebe::GUI::Gtk::AminoacidComposition
#smaller_font? Bioroebe::GUI::Gtk::ThreeToOne
#smaller_font? Bioroebe::GUI::Gtk::PrimerDesignWidget
#smaller_font? Bioroebe::GUI::Gtk::ShowCodonTable
#smaller_font? Bioroebe::GUI::Gtk::Controller
sort_aminoacid_based_on_its_hydrophobicity Bioroebe
span Bioroebe::SVG::Glyph
#split Bioroebe::RawSequence
#split Bioroebe::Taxonomy
#split_at Bioroebe::Taxonomy::Shared
#split_at_n_characters? Bioroebe::DisplayOpenReadingFrames
#split_at_tabulator Bioroebe::Taxonomy::Shared
#split_into_proper_sections Bioroebe::ParseFasta
#start Bioroebe::SVG::MiniFeature
#start_clipboard Bioroebe::Shell
start_codon? Bioroebe
#start_codon? Bioroebe::CommandlineApplication
#start_codon? Bioroebe::Shell
#start_codon? Bioroebe::FindGene
#start_codon? Bioroebe::AlignOpenReadingFrames
start_codons? Bioroebe
#start_gtk_controller Bioroebe::Shell
start_gui_application Bioroebe::GUI::Gtk::RandomSequence
#start_search Bioroebe::Shell
start_sinatra_interface Bioroebe::Sinatra
start_sinatra_interface Bioroebe
#start_stop? Bioroebe::FindGene
#start_the_iteration Bioroebe::PhredQualityScoreTable
#start_with? Bioroebe::RawSequence
#startup_message Bioroebe::ElectronMicroscopy::CoordinateAnalyzer
#startup_message Bioroebe::FindLongestSubstring
status Bioroebe::Taxonomy::Info
status Bioroebe::Taxonomy
#status? Bioroebe::Taxonomy::ParseFasta
status? Bioroebe::Taxonomy
#stop? Bioroebe::ShowThisCodonTable
#stop_codon? Bioroebe::FindGene
#stop_codons? Bioroebe::Shell
stop_codons? Bioroebe
#stop_codons? Bioroebe::FindGene
#stop_codons? Bioroebe::CommandlineApplication
#store_here? Bioroebe::Shell
#store_input_into_a_file Bioroebe::CreateBatchEntrezFile
#store_locally? Bioroebe::ParseFrequencyTable
#store_this_dataset Bioroebe::FetchFastaSequenceFromPdb
#store_where? Bioroebe::ElectronMicroscopy::CoordinateAnalyzer
#str_a Bioroebe::SmithWaterman
#str_a_arr Bioroebe::SmithWaterman
#str_b Bioroebe::SmithWaterman
#str_b_arr Bioroebe::SmithWaterman
#strand Bioroebe::SVG::MiniFeature
strict_filter_away_invalid_aminoacids Bioroebe
#strict_filter_away_invalid_aminoacids Bioroebe::CommandlineApplication
#string1? Bioroebe::FindLongestSubstringViaLCSalgorithm
#string1? Bioroebe::Levensthein
#string1? Bioroebe::Dotplot
#string1? Bioroebe::AdvancedDotplot
#string1? Bioroebe::SimpleStringComparer
#string2? Bioroebe::Dotplot
#string2? Bioroebe::AdvancedDotplot
#string2? Bioroebe::FindLongestSubstringViaLCSalgorithm
#string2? Bioroebe::Levensthein
#string2? Bioroebe::SimpleStringComparer
#string? Bioroebe::CalculateGCContent
#string? Bioroebe::GenbankFlatFileFormatGenerator
#string? Bioroebe::CountAmountOfNucleotides
#string? Bioroebe::ParsePdbFile
#strip Bioroebe::RawSequence
#strip Bioroebe::ShowOrf
#style_the_label_widget Bioroebe::GUI::Gtk::FastaTableWidget
#subseq Bioroebe::RawSequence
sum_of_odd_integers Bioroebe
#supported_primitives? Bioroebe::SVG::SVGEE
#swarn Bioroebe::ColoursForBase
#swarn Bioroebe::Shell
swarn Bioroebe
#sync_forward_and_reverse_primer Bioroebe::GUI::Gtk::PrimerDesignWidget
#sync_forward_primer Bioroebe::GUI::Gtk::PrimerDesignWidget
#sync_input_to_result Bioroebe::DetectMinimalCodon
#sync_reverse_primer Bioroebe::GUI::Gtk::PrimerDesignWidget