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#* Bioinform::Validator
#+ Bioinform::ValidationResult
#== Bioinform::MotifModel::NamedModel
#== Bioinform::Frequencies
#== Bioinform::MotifModel::PM
#== Bioinform::ComplementableAlphabet
#== Bioinform::WordwiseBackground
#== Bioinform::ValidationResult
acts_as_pcm? Bioinform::MotifModel
acts_as_ppm? Bioinform::MotifModel
acts_as_pwm? Bioinform::MotifModel
all_ok Bioinform::ValidationResult
#alphabet Bioinform::MotifModel::PM
#alphabet Bioinform::ComplementableAlphabet
#arguments Bioinform::CLI::ConvertMotif
#background Bioinform::ConversionAlgorithms::PCM2PWMConverter
#background Bioinform::ConversionAlgorithms::PWM2PCMConverter
#basename_changed_extension Bioinform::CLI::Helpers
#basename_wo_extension Bioinform::CLI::Helpers
by_maximal_elements Bioinform::ConsensusFormatter
#calculate_pseudocount Bioinform::ConversionAlgorithms::PCM2PWMConverter
#calculate_pseudocount Bioinform::ConversionAlgorithms::PWM2PCMConverter
#change_folder_and_extension Bioinform::CLI::Helpers
#complement_alphabet Bioinform::ComplementableAlphabet
#complement_index Bioinform::ComplementableAlphabet
complement_iupac_letter Bioinform::IUPAC
#complement_letter Bioinform::ComplementableAlphabet
#complemented Bioinform::MotifModel::PM
#convert Bioinform::ConversionAlgorithms::PWM2IupacPWMConverter
#convert Bioinform::ConversionAlgorithms::PCM2PPMConverter
#convert Bioinform::ConversionAlgorithms::PPM2PCMConverter
#convert Bioinform::ConversionAlgorithms::PCM2PWMConverter
#convert Bioinform::ConversionAlgorithms::MaraPCM2PWMConverter
#convert Bioinform::ConversionAlgorithms::PWM2PCMConverter
#count Bioinform::ConversionAlgorithms::PPM2PCMConverter
#count Bioinform::MotifModel::PCM
#count Bioinform::ConversionAlgorithms::PWM2PCMConverter
count_validator Bioinform::MotifModel::PCM
#counts Bioinform::WordwiseBackground
#counts Bioinform::Frequencies
default_validator Bioinform::MotifModel::PWM
default_validator Bioinform::MotifModel::PCM
default_validator Bioinform::MotifModel::PPM
#default_validator Bioinform::MotifModel::PM
default_validator Bioinform::MotifModel::PM
#discreted Bioinform::MotifModel::PWM
#each_letter Bioinform::ComplementableAlphabet
#each_letter_index Bioinform::ComplementableAlphabet
#each_position Bioinform::MotifModel::PM
element_indices Bioinform::Support
#eql? Bioinform::ValidationResult
#errors Bioinform::ValidationResult
#fix_nucleotides_number Bioinform::MatrixParser
#format Bioinform::TransfacFormatter
#format Bioinform::MotifFormatter
#format Bioinform::PrettyMatrixFormatter
#format_matrix Bioinform::MotifFormatter
#format_name Bioinform::MotifFormatter
#format_string Bioinform::ConsensusFormatter
#frequencies Bioinform::WordwiseBackground
#frequencies Bioinform::Frequencies
from_file Bioinform::MotifModel::PM
from_frequencies Bioinform::Background
from_gc_content Bioinform::Background
from_string Bioinform::MotifModel::PM
from_string Bioinform::Background
#has_header_column Bioinform::MatrixParser
#has_header_row Bioinform::MatrixParser
#has_name Bioinform::MatrixParser
#hash Bioinform::ValidationResult
hash_keys_permuted Bioinform::Support
#index_by_letter Bioinform::ComplementableAlphabet
#initialize Bioinform::ConversionAlgorithms::PCM2PWMConverter
#initialize Bioinform::Frequencies
#initialize Bioinform::Validator
#initialize Bioinform::MotifModel::NamedModel
#initialize Bioinform::PrettyMatrixFormatter
#initialize Bioinform::ValidationResult
#initialize Bioinform::ComplementableAlphabet
#initialize Bioinform::ConversionAlgorithms::PWM2PCMConverter
#initialize Bioinform::ConsensusFormatter
#initialize Bioinform::ValidationError
#initialize Bioinform::ConversionAlgorithms::PPM2PCMConverter
#initialize Bioinform::TransfacFormatter
#initialize Bioinform::MotifFormatter
#initialize Bioinform::MatrixParser
#initialize Bioinform::ConversionAlgorithms::PWM2IupacPWMConverter
#initialize Bioinform::MotifModel::PM
#initialize Bioinform::MotifSplitter
#initialize Bioinform::MotifModel::PCM
#iupac_alphabet Bioinform::ConversionAlgorithms::PWM2IupacPWMConverter
#left_augmented Bioinform::MotifModel::PWM
#length Bioinform::MotifModel::PM
#letter_by_index Bioinform::ComplementableAlphabet
#letters_as_rows Bioinform::PrettyMatrixFormatter
#main Bioinform::CLI::ConvertMotif
main Bioinform::CLI::ConvertMotif
main Bioinform::CLI::SplitMotifs
main Bioinform::CLI::PCM2PWM
#make_strict Bioinform::Validator
#matrix Bioinform::MotifModel::PM
#mean Bioinform::FrequencyCalculations
#mean_square Bioinform::FrequencyCalculations
#method_missing Bioinform::MotifModel::NamedModel
#model Bioinform::MotifModel::NamedModel
#name Bioinform::MotifModel::NamedModel
#name_pattern Bioinform::MatrixParser
#name_wo_extension Bioinform::CLI::Helpers
#named Bioinform::MotifModel::PM
#nucleotides_in Bioinform::MatrixParser
#nucleotides_in Bioinform::MotifFormatter
#option_parser Bioinform::CLI::ConvertMotif
#options Bioinform::CLI::ConvertMotif
#parse Bioinform::MatrixParser
#parse! Bioinform::CLI::ConvertMotif
#parse! Bioinform::MatrixParser
#precision Bioinform::MotifFormatter
probability_validator Bioinform::MotifModel::PPM
#pseudocount Bioinform::ConversionAlgorithms::PWM2PCMConverter
#pseudocount Bioinform::ConversionAlgorithms::PCM2PWMConverter
#reverse_complemented Bioinform::MotifModel::PM
#reversed Bioinform::MotifModel::PM
#right_augmented Bioinform::MotifModel::PWM
#rounded Bioinform::MotifModel::PM
#score Bioinform::MotifModel::PWM
#set_extension Bioinform::CLI::Helpers
#set_folder Bioinform::CLI::Helpers
#size Bioinform::ComplementableAlphabet
#split Bioinform::MotifSplitter
#splitter_pattern Bioinform::MotifSplitter
#start_motif_pattern Bioinform::MotifSplitter
#strip_doc Top Level Namespace
#strip_doc String
#symmetric? Bioinform::FrequencyCalculations
#to_s Bioinform::MotifModel::PM
#to_s Bioinform::Frequencies
#to_s Bioinform::WordwiseBackground
#to_s Bioinform::ValidationResult
#to_s Bioinform::ValidationError
#to_s Bioinform::MotifModel::NamedModel
uniform Bioinform::Background
#valid? Bioinform::ValidationResult
#valid? Bioinform::MatrixParser
#validate_params Bioinform::Validator
#validation_errors Bioinform::ValidationError
various_key_case_types Bioinform::Support
various_key_cases Bioinform::Support
various_key_types Bioinform::Support
various_key_value_case_types Bioinform::Support
various_key_value_cases Bioinform::Support
various_key_value_types Bioinform::Support
#volume Bioinform::WordwiseBackground
#volume Bioinform::Frequencies
#warnings Bioinform::ValidationResult
#with_errors Bioinform::ValidationResult
with_key_permutations Bioinform::Support
#with_name Bioinform::TransfacFormatter
#with_name Bioinform::PrettyMatrixFormatter
#with_name Bioinform::MotifFormatter
#with_nucleotide_header Bioinform::MotifFormatter
#with_position_header Bioinform::MotifFormatter
#with_warnings Bioinform::ValidationResult
wordwise Bioinform::Background
#wordwise? Bioinform::Frequencies
#wordwise? Bioinform::WordwiseBackground