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Sourcecode: python-biopython version File versions

Class List

Here are the classes, structs, unions and interfaces with brief descriptions:
Bio::Application::_AbstractParameter
Bio::Clustalw::_AlignCreator
Bio::Application::_Argument
Bio::GenBank::_BaseGenBankConsumer
Bio::Graphics::BasicChromosome::_ChromosomeComponent
Bio::KEGG::Compound::_Consumer
Bio::KEGG::Enzyme::_Consumer
Bio::KEGG::Map::_Consumer
Bio::EUtils::POM::_ContentModelGenerator
Bio::Fasta::_FastaFunctionIndexer
Bio::Fasta::_FastaTitleIndexer
Bio::GenBank::_FeatureConsumer
Bio::Blast::NCBIWWW::_FormParser
Bio::Medline::NLMMedlineXML::_IndexerHandler
Bio::Index::_InMemoryIndex
Bio::SwissProt::KeyWList::_ListConsumer
Bio::Fasta::_MartelBaseFastaParser
Bio::Application::_Option
Bio::MultiProc::copen::_PickleHandle
Bio::PDB::Polypeptide::_PPBuilder
Bio::Emboss::Primer::_Primer3RecordConsumer
Bio::Emboss::Primer::_Primer3Scanner
Bio::Emboss::Primer::_PrimerSearchRecordConsumer
Bio::Emboss::Primer::_PrimerSearchScanner
Bio::MultiProc::copen::_ProcHandle
Bio::IntelliGenetics::_RecordConsumer
Bio::Kabat::_RecordConsumer
Bio::LocusLink::_RecordConsumer
Bio::ECell::_RecordConsumer
Bio::Medline::_RecordConsumer
Bio::MetaTool::_RecordConsumer
Bio::NBRF::_RecordConsumer
Bio::CDD::_RecordConsumer
Bio::Prosite::_RecordConsumer
Bio::Prosite::Prodoc::_RecordConsumer
Bio::Rebase::_RecordConsumer
Bio::Saf::_RecordConsumer
Bio::Sequencing::Ace::_RecordConsumer
Bio::Sequencing::Phd::_RecordConsumer
Bio::GenBank::_RecordConsumer
Bio::SwissProt::SProt::_RecordConsumer
Bio::Geo::_RecordConsumer
Bio::Gobase::_RecordConsumer
Bio::Kabat::_Scanner
Bio::IntelliGenetics::_Scanner
Bio::KEGG::Compound::_Scanner
Bio::KEGG::Enzyme::_Scanner
Bio::KEGG::Map::_Scanner
Bio::LocusLink::_Scanner
Bio::Medline::_Scanner
Bio::ECell::_Scanner
Bio::MetaTool::_Scanner
Bio::NBRF::_Scanner
Bio::CDD::_Scanner
Bio::Enzyme::_Scanner
Bio::Compass::_Scanner
Bio::Prosite::_Scanner
Bio::Prosite::Prodoc::_Scanner
Bio::Rebase::_Scanner
Bio::Saf::_Scanner
Bio::Sequencing::Ace::_Scanner
Bio::Sequencing::Phd::_Scanner
Bio::Blast::NCBIStandalone::_Scanner
Bio::SwissProt::KeyWList::_Scanner
Bio::SwissProt::SProt::_Scanner
Bio::GenBank::_Scanner
Bio::Geo::_Scanner
Bio::Blast::NCBIWWW::_Scanner
Bio::Gobase::_Scanner
Bio::SwissProt::SProt::_SequenceConsumer
Bio::Index::_ShelveIndex
Bio::Blast::NCBIXML::_XMLparser
Bio::Application::AbstractCommandline
Bio::ParserSupport::AbstractConsumer
Bio::HMM::DynamicProgramming::AbstractDPAlgorithms
Bio::NeuralNetwork::BackPropagation::Layer::AbstractLayer
Bio::ParserSupport::AbstractParser
Bio::SeqFeature::AbstractPosition
Bio::GA::Selection::Abstract::AbstractSelection
test_GASelection::AbstractSelectionTest
Bio::HMM::Trainer::AbstractTrainer
Bio::Sequencing::Ace::ACEFileRecord
Bio::Sequencing::Ace::ACEParser
Bio::pairwise2::affine_penalty
Bio::SeqFeature::AfterPosition
Bio::pairwise2::align
Bio::pairwise2::align::alignment_function
Bio::AlignAce::Applications::AlignAceCommandline
Bio::AlignAce::Parser::AlignAceConsumer
Bio::AlignAce::Parser::AlignAceParser
Bio::AlignAce::Scanner::AlignAceScanner
Bio::Blast::Record::Alignment
Bio::Align::Generic::Alignment
Martel::Expression::Alt
Bio::GA::Repair::Stabilizing::AmbiguousRepair
test_GARepair::AmbiguousRepairTest
Bio::EUtils::Datatypes::And
Martel::Expression::AnyEol
Bio::GFF::GenericTools::AppendableListDictionary
Bio::Application::ApplicationResult
Bio::GFF::GenericTools::ArgsParser
Martel::Expression::AtBeginning
Martel::Expression::AtEnd
Bio::SubsMat::BadMatrix
Bio::Graphics::Distribution::BarChartDistribution
test_GraphicsDistribution::BarChartTest
Bio::EUtils::DBIdsClient::BaseDBIdsRecordSet
unittestgui::BaseGUITestRunner
Bio::Mindy::SimpleSeqRecord::BaseSeqRecordIndexer
Bio::NeuralNetwork::BackPropagation::Network::BasicNetwork
Bio::HMM::Trainer::BaumWelchTrainer
Bio::SeqFeature::BeforePosition
Bio::SeqFeature::BetweenPosition
Bio::biblio::Biblio
Bio::biblio::BiblioCollection
Bio::EUtils::Datatypes::BinaryOp
Bio::config::DBRegistry::BioCorbaDB
biocorba_sql_server::BioSQLAdapterDictionary
Bio::config::DBRegistry::BioSQLDB
Bio::Blast::Record::Blast
Bio::Blast::Applications::BlastallCommandline
Bio::Blast::NCBIStandalone::BlastErrorParser
Bio::Blast::NCBIXML::BlastParser
Bio::Blast::NCBIStandalone::BlastParser
Bio::Blast::NCBIWWW::BlastParser
Bio::PDB::Polypeptide::CaPPBuilder
Bio::Affy::CelFile::CelParser
Bio::Affy::CelFile::CelRecord
Bio::config::DBRegistry::CGIDB
Bio::EUtils::Datatypes::CheckLinkSet
Bio::Graphics::BasicChromosome::Chromosome
Bio::Graphics::DisplayRepresentation::ChromosomeCounts
test_GraphicsChromosome::ChromosomeCountTest
Bio::Graphics::BasicChromosome::ChromosomeSegment
Bio::Medline::NLMMedlineXML::Citation
Bio::Medline::NLMMedlineXML::CitationParser
Bio::Clustalw::ClustalAlignment
Bio::SeqUtils::CodonUsage::CodonAdaptationIndex
Bio::Graphics::Comparative::ComparativeScatterPlot
test_GraphicsGeneral::ComparativeTest
Bio::GFF::Connection
Bio::EUtils::POM::ContentModel
Bio::Sequencing::Ace::Contig
Bio::GA::Mutation::Simple::ConversionMutation
test_GAMutation::ConversionTest
Bio::StdHandler::ConvertDispatchHandler
Bio::StdHandler::ConvertHandler
Martel::RecordReader::CountLines
setup::CplusplusExtension
test_GAOrganism::CreatePopulationTest
Bio::Crystal::CrystalError
Bio::EUtils::Config::DatabaseDict
Bio::EUtils::Config::DatabaseInfo
BioSQL::Loader::DatabaseLoader
BioSQL::Loader::DatabaseRemover
Bio::Blast::Record::DatabaseReport
Bio::EUtils::Datatypes::Date
Bio::EUtils::Datatypes::DateRange
Bio::config::DBRegistry::DBGroup
Bio::EUtils::Datatypes::DBIds
Bio::EUtils::DBIdsClient::DBIdsClient
Bio::EUtils::DBIdsClient::DBIdsLookup
Bio::EUtils::DBIdsClient::DBIdsRecord
Bio::config::DBRegistry::DBObject
Bio::config::DBRegistry::DBRegistry
BioSQL::BioSeq::DBSeqRecord
Bio::Blast::Record::Description
Bio::Prosite::Dictionary
Bio::Prosite::Prodoc::Dictionary
Bio::PubMed::Dictionary
Bio::Rebase::Dictionary
Bio::Fasta::Dictionary
Bio::GenBank::Dictionary
Bio::SwissProt::SProt::Dictionary
Bio::Gobase::Dictionary
Bio::pairwise2::dictionary_match
Bio::NeuralNetwork::Gene::Schema::DifferentialSchemaFitness
Bio::PDB::Atom::DisorderedAtom
Bio::PDB::Entity::DisorderedEntityWrapper
Bio::PDB::Residue::DisorderedResidue
Martel::Dispatch::Dispatcher
Bio::Graphics::Distribution::DistributionPage
Bio::GA::Selection::Diversity::DiversitySelection
test_GASelection::DiversitySelectionTest
test_MarkovModel::DNAStrandStates = [ "state0", "state1", "state2", "state3", ] alphabet = ["a", "c", "g", "t"]
Bio::SCOP::Domain
Martel::Expression::Dot
Bio::PDB::DSSP::DSSP
Bio::ECell::ECellError
Bio::Emboss::Applications::EConsenseCommandline
Bio::Emboss::Applications::ENeighborCommandline
Bio::PDB::Entity::Entity
Bio::Emboss::Applications::EProtDistCommandline
Bio::Emboss::Applications::EProtParsCommandline
Bio::ECell::Error
Bio::Crystal::Error
Bio::Geo::Error
Bio::GenBank::ErrorParser
Bio::Emboss::Applications::ESeqBootCommandline
Bio::Emboss::Applications::Est2GenomeCommandline
Bio::Emboss::Applications::ETandemCommandline
Bio::config::DBRegistry::EUtilsDB
Bio::EUtils::Datatypes::EUtilsError
Bio::EUtils::Datatypes::EUtilsSearchError
Bio::ParserSupport::EventGenerator
test_ParserSupport::EventGeneratorTest
Martel::RecordReader::Everything
Bio::SeqFeature::ExactPosition
Bio::NeuralNetwork::Training::ExampleManager
test_NNGeneral::ExampleManagerTest
Bio::Prosite::ExPASyDictionary
Bio::Prosite::Prodoc::ExPASyDictionary
Bio::SwissProt::SProt::ExPASyDictionary
Bio::EUtils::Datatypes::Expression
Martel::Expression::Expression
Martel::Expression::ExpressionList
Bio::Fasta::FastaAlign::FastaAlignment
Bio::GFF::Feature
Bio::GenBank::Record::Feature
Bio::GFF::FeatureAggregate
Bio::GFF::easy::FeatureDict
Bio::SeqFeature::FeatureLocation
Bio::GenBank::FeatureParser
Bio::GFF::FeatureQuery
Bio::GFF::FeatureQueryRow
Bio::GenBank::utils::FeatureValueCleaner
Bio::SCOP::FileIndex::FileIndex
Bio::Mindy::SimpleSeqRecord::FixDocumentBuilder
Bio::Align::FormatConvert::FormatConverter
Bio::config::FormatRegistry::FormatGroup
Bio::config::FormatRegistry::FormatObject
Bio::config::FormatRegistry::FormatRegistry
test_GACrossover::FourPointTest
Bio::PDB::FragmentMapper::Fragment
Bio::PDB::FragmentMapper::FragmentMapper
Bio::EUtils::POM::Fragments
Bio::FSSP::FSSPSumRec
Bio::Mindy::SimpleSeqRecord::FunctionIndexer
Bio::Emboss::Applications::FuzznucCommandline
test_Registry::GenBankRetrievalTest
Bio::GA::Crossover::GeneralPoint::GeneralPointCrossover
Bio::GA::Evolver::GenerationEvolver
Bio::Gobase::GeneRecord
Bio::NeuralNetwork::Gene::Schema::GeneticAlgorithmFinder
Bio::Geo::GeoError
Bio::Pathway::Rep::Graph::Graph
unittestgui::GUITestResult
Bio::Pathway::Rep::HashSet::HashSet
Bio::Blast::Record::Header
Martel::Parser::HeaderFooterParser
Bio::Crystal::Hetero
test_HotRand::HexConversionTest
Bio::HMM::MarkovModel::HiddenMarkovModel
Bio::EUtils::HistoryClient::HistoryCookie
Bio::EUtils::HistoryClient::HistoryLookup
Bio::EUtils::HistoryClient::HistoryRecord
Bio::PDB::HSExposure::HSExposure
Bio::Blast::Record::HSP
Bio::SVM::HyperbolicTangentKernel
Bio::EUtils::Datatypes::IdCheck
Bio::pairwise2::identity_match
Bio::EUtils::Datatypes::IdUrlSet
Bio::Ais::Immune
test_ais::ImmuneTest
test_BioSQL::InDepthLoadTest
Bio::SCOP::Cla::Index
Bio::config::DBRegistry::IndexedFileDB
setup::install_biopython
Bio::Pathway::Interaction
Bio::GA::Crossover::GeneralPoint::InterleaveCrossover
test_GACrossover::InterleaveTest
Bio::InterPro::InterProParser
Bio::IntelliGenetics::Iterator
Bio::Kabat::Iterator
Bio::KEGG::Compound::Iterator
Bio::KEGG::Enzyme::Iterator
Bio::LocusLink::Iterator
Bio::ECell::Iterator
Bio::Medline::Iterator
Bio::MetaTool::Iterator
Bio::NBRF::Iterator
Bio::CDD::Iterator
Bio::Blast::NCBIStandalone::Iterator
Bio::Prosite::Iterator
Bio::Gobase::Iterator
Bio::Prosite::Prodoc::Iterator
Bio::Rebase::Iterator
Bio::Saf::Iterator
Bio::KEGG::Map::Iterator
Bio::SCOP::Cla::Iterator
Bio::SCOP::Des::Iterator
Bio::Compass::Iterator
Bio::Fasta::Iterator
Bio::SCOP::Hie::Iterator
Bio::SCOP::Raf::Iterator
Bio::SwissProt::SProt::Iterator
Bio::SCOP::Dom::Iterator
Bio::Sequencing::Ace::Iterator
Bio::Sequencing::Phd::Iterator
Bio::GenBank::Iterator
Bio::Geo::Iterator
Bio::KDTree::KDTree::KDTree
Bio::SVM::KeerthiTrainer
Bio::kNN::kNN
Bio::HMM::Trainer::KnownStateTrainer
test_HMMGeneral::LetterAlphabet
Bio::SVM::LinearKernel
Bio::Graphics::Distribution::LineDistribution
Bio::EUtils::Datatypes::Link
Bio::EUtils::Datatypes::LinkSetDb
Bio::EUtils::Datatypes::LinksLinkSet
Bio::SwissProt::KeyWList::ListParser
test_BioSQL::LoaderTest
Bio::Mindy::Location::Location
Bio::GFF::easy::Location
Bio::GFF::easy::LocationFromCoords
Bio::GFF::easy::LocationFromString
Bio::GFF::easy::LocationJoin
Bio::GenBank::LocationParserError
Bio::HMM::DynamicProgramming::LogDPAlgorithms
Bio::LogisticRegression::LogisticRegression
Bio::Blast::NCBIStandalone::LowQualityBlastError
Bio::config::_support::make_cached_expression
Bio::config::_support::make_rate_limited_function
Bio::config::_support::make_timed_function
Bio::HMM::MarkovModel::MarkovModelBuilder
test_ais::MatchSequenceTest
Bio::MaxEntropy::MaxEntropy
Bio::PDB::Model::Model
Bio::NeuralNetwork::Gene::Schema::MostCountSchemaFitness
Bio::AlignAce::Motif::Motif
Bio::NeuralNetwork::Gene::Motif::MotifCoder
test_NNGene::MotifCoderTest
Bio::NeuralNetwork::Gene::Motif::MotifFinder
test_NNGene::MotifFinderTest
Bio::Pathway::Rep::MultiGraph::MultiGraph
Bio::Clustalw::MultipleAlignCL
Bio::Blast::Record::MultipleAlignment
test_GAMutation::MutationHelper
Martel::setup::my_install
Bio::NaiveBayes::NaiveBayes
Bio::GenBank::NCBIDictionary
Bio::Ndb::NdbParser
Bio::EUtils::Datatypes::NeighborLinkSet
Bio::PDB::NeighborSearch::NeighborSearch
Bio::NetCatch::NetCatch
Bio::Pathway::Network
test_GASelection::NoCrossover
Bio::SCOP::Node
test_GASelection::NoMutation
test_GASelection::NoRepair
test_GASelection::NoSelection
Bio::EUtils::Datatypes::Not
Martel::RecordReader::Nothing
test_HMMGeneral::NumberAlphabet
Bio::EUtils::Datatypes::ObjUrl
Bio::SeqFeature::OneOfPosition
Bio::EUtils::Datatypes::Or
Bio::EUtils::MultiDict::OrderedMultiDict
Bio::Graphics::BasicChromosome::Organism
Bio::GA::Organism::Organism
test_GraphicsChromosome::OrganismGraphicTest
test_GAOrganism::OrganismTest
Bio::Blast::Record::Parameters
Bio::KEGG::Compound::Parser
Bio::KEGG::Enzyme::Parser
Bio::KEGG::Map::Parser
Bio::SCOP::Cla::Parser
Bio::SCOP::Des::Parser
Bio::SCOP::Dom::Parser
Bio::SCOP::Raf::Parser
Bio::SCOP::Hie::Parser
Martel::Parser::Parser
Martel::Parser::ParserException
Bio::GenBank::ParserFailureError
Martel::Parser::ParserRecordException
Bio::Prosite::PatternHit
Bio::NeuralNetwork::Gene::Pattern::PatternIO
test_NNGene::PatternIOTest
Bio::NeuralNetwork::Gene::Pattern::PatternRepository
test_NNGene::PatternRepositoryTest
Bio::PDB::PDBIO::PDBIO
Bio::PDB::PDBList::PDBList
Bio::PDB::PDBParser::PDBParser
BioSQL::DBUtils::Pgdb_dbutils
Bio::SVM::PolynomialKernel
Bio::PDB::Polypeptide::Polypeptide
Bio::SeqFeature::PositionGap
Bio::EUtils::Datatypes::PostResult
Bio::PDB::Polypeptide::PPBuilder
Bio::Emboss::Applications::Primer3Commandline
Bio::Emboss::Primer::Primer3Parser
Bio::Emboss::Primer::Primer3Primers
Bio::Emboss::Primer::Primer3Record
Bio::Emboss::Primer::PrimerSearchAmplifier
Bio::Emboss::Applications::PrimerSearchCommandline
Bio::Emboss::Primer::PrimerSearchInputRecord
test_EmbossPrimer::PrimerSearchInputTest
Bio::Emboss::Primer::PrimerSearchOutputRecord
Bio::Emboss::Primer::PrimerSearchParser
Martel::Generate::print_debug
Martel::Generate::print_info
Bio::EUtils::Datatypes::Problem
unittestgui::ProgressBar
Bio::SeqUtils::ProtParam::ProteinAnalysis
Bio::Gobase::ProteinRecord
Bio::EUtils::Datatypes::Provider
Bio::Blast::Record::PSIBlast
Bio::Blast::NCBIStandalone::PSIBlastParser
Bio::Align::AlignInfo::PSSM
Bio::EUtils::DBIdsClient::PublicationDBIdsFetchMixin
Bio::EUtils::DBIdsClient::PublicationDBIdsRecord
Bio::EUtils::DBIdsClient::PublicationDBIdsRecordSet
Bio::EUtils::Mixins::PublicationFetchMixinShould turn this into a Bio.SeqRecord object Could do that using the XML code, but GenBank/GenPept is better
Bio::GenBank::Record::Qualifier
test_GAQueens::QueensCrossover
test_GAQueens::QueensMutation
test_GAQueens::QueensRepair
Bio::DocSQL::Query
Bio::SVM::RadialBasisFunctionKernel
Bio::NeuralNetwork::Gene::Schema::RandomMotifGenerator
test_HotRand::RandomSequenceTest
Bio::EUtils::Datatypes::Range
Bio::Pathway::Reaction
test_BioSQL::ReadTest
Bio::NBRF::Record::Record
Bio::IntelliGenetics::Record::Record
Bio::KEGG::Compound::Record
Bio::GenBank::Record::Record
Bio::Kabat::Record::Record
Bio::Medline::Record
Bio::Prosite::Prodoc::Record
Bio::Fasta::Record
Bio::KEGG::Enzyme::Record
Bio::Rebase::Record
Bio::ECell::Record::Record
Bio::MetaTool::Record::Record
Bio::SCOP::Des::Record
Bio::SCOP::Hie::Record
Bio::Gobase::Record
Bio::CDD::Record::Record
Bio::Compass::Record
Bio::Sequencing::Phd::Record
Bio::Prosite::Record
Bio::SCOP::Dom::Record
Bio::SwissProt::SProt::Record
Bio::Saf::Record::Record
Bio::Geo::Record::Record
Bio::SCOP::Cla::Record
Bio::Sequencing::Ace::RecordParser
Bio::Fasta::RecordParser
Bio::NBRF::RecordParser
Bio::IntelliGenetics::RecordParser
Martel::Parser::RecordParser
Bio::Sequencing::Phd::RecordParser
Bio::Saf::RecordParser
Bio::Prosite::Prodoc::RecordParser
Bio::Medline::RecordParser
Bio::Prosite::RecordParser
Bio::Rebase::RecordParser
Bio::MetaTool::RecordParser
Bio::ECell::RecordParser
Bio::Compass::RecordParser
Bio::LocusLink::RecordParser
Bio::CDD::RecordParser
Bio::GenBank::RecordParser
Bio::SwissProt::SProt::RecordParser
Bio::Kabat::RecordParser
Bio::Geo::RecordParser
Bio::Gobase::RecordParser
Bio::SeqFeature::Reference
Bio::Prosite::Prodoc::Reference
Bio::SwissProt::SProt::Reference
Bio::GenBank::Record::Reference
Bio::config::Registry::RegisterableGroup
Bio::config::Registry::RegisterableObject
Bio::config::Registry::Registry
run_tests::RegressionTest
Bio::SCOP::Raf::Res
Bio::EUtils::ReseekFile::ReseekFile
Bio::PDB::Residue::Residue
Bio::PDB::ResidueDepth::ResidueDepth
Bio::SCOP::Residues::Residues
Bio::GFF::RetrieveSeqname
unittestgui::RollbackImporter
Bio::GA::Selection::RouletteWheel::RouletteWheelSelection
test_GASelection::RouletteWheelSelectionTest
Bio::Blast::Record::Round
Martel::setup::run_install_tests
Martel::setup::run_local_tests
Bio::GA::Crossover::General::SafeFitnessCrossover
Bio::GA::Mutation::General::SafeFitnessMutation
test_GAMutation::SafeFitnessTest
test_GACrossover::SafeFitnessTest
Bio::HMM::DynamicProgramming::ScaledDPAlgorithms
Bio::MultiProc::Scheduler::Scheduler
Bio::NeuralNetwork::Gene::Schema::Schema
Bio::NeuralNetwork::Gene::Schema::SchemaCoder
test_NNGene::SchemaCoderTest
Bio::NeuralNetwork::Gene::Schema::SchemaDNAAlphabet
Bio::NeuralNetwork::Gene::Schema::SchemaFactory
test_NNGene::SchemaFactoryTest
Bio::NeuralNetwork::Gene::Schema::SchemaFinder
test_NNGene::SchemaFinderTest
test_NNGene::SchemaMatchingTest
test_NNGene::SchemaTest
Bio::SCOP::Scop
Bio::EUtils::Datatypes::SearchResult
Bio::GFF::Segment
Bio::PDB::PDBIO::Select
Martel::Expression::Seq
Bio::config::SeqDBRegistry::SeqDBRegistry
Bio::SeqFeature::SeqFeature
test_BioSQL::SeqInterfaceTest
Bio::SCOP::Raf::SeqMap
Bio::SCOP::Raf::SeqMapIndex
Bio::SubsMat::SeqMat
Bio::EUtils::DBIdsClient::SequenceDBIdsFetchMixin
Bio::EUtils::DBIdsClient::SequenceDBIdsRecord
Bio::EUtils::DBIdsClient::SequenceDBIdsRecordSet
Bio::SwissProt::SProt::SequenceParser
Bio::Fasta::SequenceParser
Bio::Gobase::SequenceRecord
Bio::SGMLExtractor::SGMLExtractorHandle
Bio::File::SGMLHandle
Bio::ParserSupport::SGMLStrippingConsumer
Bio::Blast::NCBIStandalone::ShortQueryBlastError
Bio::NeuralNetwork::Gene::Signature::SignatureCoder
test_NNGene::SignatureCoderTest
Bio::NeuralNetwork::Gene::Signature::SignatureFinder
test_NNGene::SignatureFinderTest
Bio::NeuralNetwork::Gene::Schema::SimpleFinisher
Bio::Mindy::SimpleSeqRecord::SimpleIndexer
Bio::GA::Crossover::Point::SinglePointCrossover
test_GACrossover::SinglePointTest
Bio::GA::Mutation::Simple::SinglePositionMutation
test_GAMutation::SinglePositionTest
Bio::SVM::SMOTrainer
Bio::EUtils::sourcegen::SourceGen
Bio::SVM::SparseLinearKernel
Bio::SVM::SparsePolynomialKernel
Bio::SVM::SparseRadialBasisFunctionKernel
Bio::config::_stanzaformat::Stanza
Bio::config::_stanzaformat::StanzaFormat
Bio::Wise::dnal::Statistics
Bio::GA::Evolver::SteadyStateEvolver
test_NNGeneral::StopTrainingTest
Bio::PDB::Structure::Structure
Bio::PDB::StructureAlignment::StructureAlignment
Bio::PDB::StructureBuilder::StructureBuilder
Bio::EUtils::Datatypes::Summary
Bio::Align::AlignInfo::SummaryInfo
Bio::PDB::Superimposer::Superimposer
Bio::GFF::GenericTools::Surrogate
Bio::SVDSuperimposer::SVDSuperimposer::SVDSuperimposer
Bio::SVM::SVM
Bio::Pathway::System
Bio::ParserSupport::TaggingConsumer
Bio::MultiProc::Task::Task
Bio::Graphics::BasicChromosome::TelomereSegment
Bio::EUtils::Datatypes::Term
setup::test_biopython
test_GASelection::TestAlphabet
test_GARepair::TestAlphabet
test_GAOrganism::TestAlphabet
test_GAMutation::TestAlphabet
test_GACrossover::TestAlphabet
test_ParserSupport::TestConsumer
test_GACrossover::TestCrossover
test_GAMutation::TestMutator
Bio::config::DBRegistry::TextLikeMixin
Bio::EUtils::ThinClient::ThinClient
unittestgui::TkTestRunner
Bio::GA::Selection::Tournament::TournamentSelection
test_GASelection::TournamentSelectionTest
Bio::NeuralNetwork::Training::TrainingExample
Bio::HMM::Trainer::TrainingSequence
Bio::Emboss::Applications::TranalignCommandline
Bio::SVM::TransductiveTrainer
Bio::GA::Crossover::GeneralPoint::TwoCrossover
Bio::GA::Crossover::TwoPoint::TwoPointCrossover
test_GACrossover::TwoPointTest
Bio::File::UndoHandle
Bio::GA::Crossover::Uniform::UniformCrossover
test_GACrossover::UniformTest
Bio::EUtils::MultiDict::UnorderedMultiDict
Bio::EUtils::POM::ValidationError
Bio::NeuralNetwork::StopTraining::ValidationIncreaseStop
Bio::Emboss::Applications::WaterCommandline
Bio::EUtils::Datatypes::WithinNDays
Bio::SeqFeature::WithinPosition

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