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#* GeneValidator::Pair
#+ GeneValidator::Pair
#- GeneValidator::Pair
#/ GeneValidator::Pair
#== GeneValidator::Pair
#accession_no GeneValidator::Sequence
#add GeneValidator::PairCluster
#add GeneValidator::Cluster
add_to_path GeneValidator::GVArgValidation
#align_len GeneValidator::Hsp
#analayse_tabular_file GeneValidator::TabularParser
#approach GeneValidator::ValidationReport
#array_to_ranges GeneValidator::AlignmentValidation
assert_blast_database_provided GeneValidator::GVArgValidation::Blast
assert_blast_installation GeneValidator::GVArgValidation::Blast
assert_local_blast_database_exists GeneValidator::GVArgValidation::Blast
assert_mafft_installation GeneValidator::GVArgValidation::Mafft
#aux1 GeneValidator::Plot
#aux1 GeneValidator::TabularEntry
#aux2 GeneValidator::Plot
#aux2 GeneValidator::TabularEntry
#average GeneValidator::DuplicationValidationOutput
#bad_predictions GeneValidator::Validation
#bg_color GeneValidator::ValidationReport
#bit_score GeneValidator::Hsp
#cli_name GeneValidator::ValidationTest
#clusterization_by_length GeneValidator::LengthClusterValidation
#clusters GeneValidator::HierarchicalClusterization
#clusters GeneValidator::LengthClusterValidation
#color GeneValidator::GeneMergeValidationOutput
#color GeneValidator::ValidationReport
#color GeneValidator::DuplicationValidationOutput
#column_names GeneValidator::TabularParser
command? GeneValidator::GVArgValidation
#compute_scores GeneValidator::Validation
#conclude GeneValidator::LengthClusterValidationOutput
#conclude GeneValidator::AlignmentValidationOutput
#conclude GeneValidator::DuplicationValidationOutput
#conclude GeneValidator::ORFValidationOutput
#conclude GeneValidator::GeneMergeValidationOutput
#conclude GeneValidator::LengthRankValidationOutput
#conclude GeneValidator::BlastRFValidationOutput
#conclusion GeneValidator::ValidationReport
#consensus GeneValidator::AlignmentValidationOutput
#consensus_validation GeneValidator::AlignmentValidation
#coverage GeneValidator::ORFValidationOutput
#create_an_index_file_of_raw_seq_file GeneValidator::Validation
#definition GeneValidator::Sequence
#density GeneValidator::PairCluster
#density GeneValidator::Cluster
#description GeneValidator::ValidationReport
#description GeneValidator::ValidationTest
#determine_sequence_type GeneValidator::Validation
#deviation GeneValidator::Cluster
#distance GeneValidator::PairCluster
#distance GeneValidator::Cluster
#do_validations GeneValidator::Validation
#eql? GeneValidator::Pair
#errors GeneValidator::ValidationReport
#expected GeneValidator::ValidationReport
#explain GeneValidator::BlastRFValidationOutput
#explain GeneValidator::GeneMergeValidationOutput
#explain GeneValidator::DuplicationValidationOutput
#explain GeneValidator::LengthRankValidationOutput
#explain GeneValidator::LengthClusterValidationOutput
#explanation GeneValidator::ValidationReport
#extra_seq GeneValidator::AlignmentValidationOutput
#extra_sequence_validation GeneValidator::AlignmentValidation
#extract_raw_sequences_of_blast_hits GeneValidator::Validation
#extreme_hits GeneValidator::LengthRankValidationOutput
#fails GeneValidator::Output
#filename GeneValidator::GeneMergeValidation
#filename GeneValidator::OpenReadingFrameValidation
#filename GeneValidator::LengthClusterValidation
#filename GeneValidator::AlignmentValidation
#filename GeneValidator::Plot
#filename GeneValidator::Validation
#filename GeneValidator::TabularEntry
#filename GeneValidator::Output
#footer GeneValidator::TabularEntry
#footer GeneValidator::Plot
#frames_histo GeneValidator::BlastRFValidationOutput
#gap_validation GeneValidator::AlignmentValidation
#gaps GeneValidator::Hsp
#gaps GeneValidator::AlignmentValidationOutput
#generate_html GeneValidator::Output
#get_consensus GeneValidator::AlignmentValidation
#get_info_on_each_query_sequence GeneValidator::Validation
#get_limits GeneValidator::Cluster
#get_orfs GeneValidator::OpenReadingFrameValidation
#get_sequence_by_accession_no GeneValidator::Sequence
#get_sequence_from_index_file GeneValidator::Sequence
#get_sm_pssm GeneValidator::AlignmentValidation
#good_predictions GeneValidator::Validation
guess_sequence_type GeneValidator::BlastUtils
guess_sequence_type_from_file GeneValidator::BlastUtils
#hash GeneValidator::Pair
#header GeneValidator::ValidationTest
#header GeneValidator::ValidationReport
#hierarchical_clusterization GeneValidator::HierarchicalClusterization
#hierarchical_clusterization_2d GeneValidator::HierarchicalClusterization
#hit_alignment GeneValidator::Hsp
#hit_from GeneValidator::Hsp
#hit_to GeneValidator::Hsp
#hits GeneValidator::GeneMergeValidation
#hits GeneValidator::ValidationTest
#hsp_evalue GeneValidator::Hsp
#hsp_list GeneValidator::Sequence
#hsp_score GeneValidator::Hsp
#html_path GeneValidator::Output
#html_path GeneValidator::Validation
#identifier GeneValidator::Sequence
#identity GeneValidator::Hsp
#idx GeneValidator::Output
#idx GeneValidator::Validation
#in_range? GeneValidator::DuplicationValidation
#index_file_name GeneValidator::AlignmentValidation
#index_file_name GeneValidator::DuplicationValidation
#index_the_input GeneValidator::Validation
#init_tabular_attribute GeneValidator::Sequence
#init_tabular_attribute GeneValidator::Hsp
#initialise_all_hsps GeneValidator::TabularParser
#initialise_classes GeneValidator::TabularParser
#initialize GeneValidator::LengthClusterValidationOutput
#initialize GeneValidator::ValidationReport
#initialize GeneValidator::LengthClusterValidation
#initialize GeneValidator::TabularParser
#initialize GeneValidator::Output
#initialize GeneValidator::ValidationTest
#initialize GeneValidator::HierarchicalClusterization
#initialize GeneValidator::AlignmentValidation
#initialize GeneValidator::GeneMergeValidation
#initialize Pool
#initialize GeneValidator::Hsp
#initialize GeneValidator::ORFValidationOutput
#initialize GeneValidator::LengthRankValidation
#initialize GeneValidator::GeneMergeValidationOutput
#initialize GeneValidator::Validation
#initialize GeneValidator::DuplicationValidationOutput
#initialize GeneValidator::DuplicationValidation
#initialize GeneValidator::BlastReadingFrameValidation
#initialize GeneValidator::AlignmentValidationOutput
#initialize GeneValidator::LengthRankValidationOutput
#initialize GeneValidator::PairCluster
#initialize GeneValidator::OpenReadingFrameValidation
#initialize GeneValidator::Sequence
#initialize GeneValidator::Cluster
#initialize GeneValidator::BlastRFValidationOutput
#input_fasta_file GeneValidator::Validation
#inside_cluster GeneValidator::Cluster
#isalpha GeneValidator::AlignmentValidation
#largest_hit GeneValidator::LengthRankValidationOutput
#length_protein GeneValidator::Sequence
#lengths GeneValidator::Cluster
#limits GeneValidator::LengthClusterValidationOutput
#mainORFFrame GeneValidator::ORFValidationOutput
#map_errors GeneValidator::Validation
#map_running_times GeneValidator::Validation
#match_query_from GeneValidator::Hsp
#match_query_to GeneValidator::Hsp
#max_density_cluster GeneValidator::LengthClusterValidation
#mean GeneValidator::ExtraArrayMethods
#mean GeneValidator::PairCluster
#mean GeneValidator::LengthRankValidationOutput
#mean GeneValidator::Cluster
#median GeneValidator::ExtraArrayMethods
#median GeneValidator::LengthRankValidationOutput
#message GeneValidator::ValidationReport
#middles GeneValidator::Hsp
#mode GeneValidator::ExtraArrayMethods
#most_dense_cluster GeneValidator::HierarchicalClusterization
#msg GeneValidator::LengthRankValidationOutput
#msg GeneValidator::BlastRFValidationOutput
#multiple_align_mafft GeneValidator::AlignmentValidation
#multiple_alignment GeneValidator::AlignmentValidation
#mutex GeneValidator::Output
#mutex GeneValidator::Validation
#mutex_array GeneValidator::Validation
#mutex_html GeneValidator::Output
#mutex_html GeneValidator::Validation
#mutex_yaml GeneValidator::Output
#mutex_yaml GeneValidator::Validation
#nee GeneValidator::Validation
#next GeneValidator::TabularParser
#no_internet GeneValidator::Validation
#no_mafft GeneValidator::Validation
#no_of_hits GeneValidator::LengthRankValidationOutput
#no_queries GeneValidator::Validation
#nr_hits GeneValidator::Output
#nucleotide_rf GeneValidator::Sequence
#objects GeneValidator::PairCluster
#opt GeneValidator::Validation
#orfs GeneValidator::ORFValidationOutput
overall_evaluation GeneValidator::Output
#overall_evaluation GeneValidator::Validation
#overall_score GeneValidator::Output
#parse_blast_output_file GeneValidator::Validation
#parse_next GeneValidator::TabularParser
parse_next GeneValidator::BlastUtils
#parse_next_iteration GeneValidator::Validation
#percentage GeneValidator::LengthRankValidationOutput
#pidentity GeneValidator::Hsp
#plot_2d_start_from GeneValidator::GeneMergeValidation
#plot_alignment GeneValidator::AlignmentValidation
#plot_files GeneValidator::ValidationReport
#plot_histo_clusters GeneValidator::LengthClusterValidation
#plot_len_clusters GeneValidator::LengthClusterValidation
#plot_matched_regions GeneValidator::GeneMergeValidation
#plot_orfs GeneValidator::OpenReadingFrameValidation
#positive GeneValidator::Hsp
#prediction GeneValidator::GeneMergeValidation
#prediction GeneValidator::ValidationTest
#prediction_def GeneValidator::Output
#prediction_len GeneValidator::Output
#print GeneValidator::LengthClusterValidationOutput
#print GeneValidator::GeneMergeValidationOutput
#print GeneValidator::Cluster
#print GeneValidator::Pair
#print GeneValidator::PairCluster
#print GeneValidator::DuplicationValidationOutput
#print GeneValidator::BlastRFValidationOutput
#print GeneValidator::AlignmentValidationOutput
#print GeneValidator::ORFValidationOutput
#print GeneValidator::ValidationReport
#print GeneValidator::LengthRankValidationOutput
print_footer GeneValidator::Output
#print_output_console GeneValidator::Output
#print_output_file_yaml GeneValidator::Output
#protein_translation GeneValidator::Sequence
#pvalue GeneValidator::DuplicationValidationOutput
#query_alignment GeneValidator::Hsp
#query_length GeneValidator::LengthClusterValidationOutput
#query_length GeneValidator::LengthRankValidationOutput
#query_offset_lst GeneValidator::Validation
#query_reading_frame GeneValidator::Hsp
#raw_seq_file GeneValidator::DuplicationValidation
#raw_seq_file GeneValidator::AlignmentValidation
#raw_seq_file_index GeneValidator::Validation
#raw_seq_file_load GeneValidator::DuplicationValidation
#raw_seq_file_load GeneValidator::Validation
#raw_seq_file_load GeneValidator::AlignmentValidation
#raw_sequence GeneValidator::Sequence
#reading_frame GeneValidator::Sequence
#remove_identical_hits GeneValidator::Validation
#remove_isolated_residues GeneValidator::AlignmentValidation
#result GeneValidator::LengthRankValidationOutput
#result GeneValidator::DuplicationValidationOutput
#result GeneValidator::ORFValidationOutput
#result GeneValidator::LengthClusterValidationOutput
#result GeneValidator::ValidationReport
#result GeneValidator::GeneMergeValidationOutput
#result GeneValidator::BlastRFValidationOutput
#result GeneValidator::AlignmentValidationOutput
#rows GeneValidator::TabularParser
#run GeneValidator::LengthClusterValidation
#run GeneValidator::BlastReadingFrameValidation
#run GeneValidator::LengthRankValidation
#run GeneValidator::DuplicationValidation
#run GeneValidator::Validation
#run GeneValidator::GeneMergeValidation
#run GeneValidator::AlignmentValidation
#run GeneValidator::OpenReadingFrameValidation
run GeneValidator::GetRawSequences
#run GeneValidator::ValidationTest
run_blast GeneValidator::BlastUtils
#run_blast_on_each_sequence GeneValidator::Validation
run_blast_on_file GeneValidator::BlastUtils
#run_blast_on_the_input_file GeneValidator::Validation
#run_validations GeneValidator::Validation
#running_time GeneValidator::ValidationReport
#running_time GeneValidator::ValidationTest
#sample_variance GeneValidator::ExtraArrayMethods
#schedule Pool
#scores GeneValidator::Validation
#short_header GeneValidator::ValidationReport
#short_header GeneValidator::ValidationTest
#shutdown Pool
#slope GeneValidator::GeneMergeValidationOutput
#slope GeneValidator::GeneMergeValidation
#slope_statsample GeneValidator::GeneMergeValidation
#smallest_hit GeneValidator::LengthRankValidationOutput
#species GeneValidator::Sequence
#standard_deviation GeneValidator::Cluster
#standard_deviation GeneValidator::ExtraArrayMethods
#start_idx GeneValidator::Output
#start_idx GeneValidator::Validation
#successes GeneValidator::Output
#sum GeneValidator::ExtraArrayMethods
#tab_results GeneValidator::TabularParser
#threads GeneValidator::Validation
#threshold GeneValidator::DuplicationValidationOutput
#threshold GeneValidator::AlignmentValidationOutput
#threshold GeneValidator::ORFValidationOutput
#threshold_down GeneValidator::GeneMergeValidationOutput
#threshold_up GeneValidator::GeneMergeValidationOutput
#title GeneValidator::Plot
#title GeneValidator::TabularEntry
#total_hsp GeneValidator::BlastRFValidationOutput
#type GeneValidator::Plot
#type GeneValidator::TabularParser
#type GeneValidator::TabularEntry
#type GeneValidator::ValidationTest
#type GeneValidator::Sequence
#type GeneValidator::Validation
type_of_sequences GeneValidator::BlastUtils
#unimodality GeneValidator::GeneMergeValidationOutput
#unimodality_test GeneValidator::GeneMergeValidation
validate GeneValidator::GVArgValidation::Blast
#validate GeneValidator::Validation
validate_args GeneValidator::GVArgValidation
#validation GeneValidator::GeneMergeValidationOutput
#validation GeneValidator::DuplicationValidationOutput
#validation GeneValidator::AlignmentValidationOutput
#validation GeneValidator::ValidationReport
#validation GeneValidator::ORFValidationOutput
#validation GeneValidator::LengthClusterValidationOutput
#validation GeneValidator::BlastRFValidationOutput
#validation GeneValidator::LengthRankValidationOutput
#validation_report GeneValidator::ValidationTest
#validation_result GeneValidator::ValidationReport
#validations GeneValidator::Output
#values GeneValidator::HierarchicalClusterization
#wilcox_test GeneValidator::DuplicationValidation
#wss GeneValidator::Cluster
#wss GeneValidator::PairCluster
#x GeneValidator::Pair
#x GeneValidator::Pair1
#xtitle GeneValidator::Plot
#xtitle GeneValidator::TabularEntry
#y GeneValidator::Pair
#y GeneValidator::Pair1
#yaml_path GeneValidator::Output
#yaml_path GeneValidator::Validation
#ytitle GeneValidator::Plot
#ytitle GeneValidator::TabularEntry