Everything
All Classes
Bio.Affy.CelFile.CelConsumer
Bio.Affy.CelFile.CelParser
Bio.Affy.CelFile.CelRecord
Bio.Affy.CelFile.CelScanner
Bio.Ais.Immune
Bio.Ais.Lymphocyte
Bio.Align.AlignInfo.PSSM
Bio.Align.AlignInfo.SummaryInfo
Bio.Align.FormatConvert.FormatConverter
Bio.Align.Generic.Alignment
Bio.AlignAce.Applications.AlignAceCommandline
Bio.AlignAce.Applications.CompareAceCommandline
Bio.AlignAce.Motif.Motif
Bio.AlignAce.Parser.AlignAceConsumer
Bio.AlignAce.Parser.AlignAceParser
Bio.AlignAce.Parser.CompareAceConsumer
Bio.AlignAce.Parser.CompareAceParser
Bio.AlignAce.Scanner.AlignAceScanner
Bio.AlignAce.Scanner.CompareAceScanner
Bio.Alphabet.Alphabet
Bio.Alphabet.AlphabetEncoder
Bio.Alphabet.DNAAlphabet
Bio.Alphabet.Gapped
Bio.Alphabet.HasStopCodon
Bio.Alphabet.IUPAC.ExtendedIUPACDNA
Bio.Alphabet.IUPAC.ExtendedIUPACProtein
Bio.Alphabet.IUPAC.IUPACAmbiguousDNA
Bio.Alphabet.IUPAC.IUPACAmbiguousRNA
Bio.Alphabet.IUPAC.IUPACProtein
Bio.Alphabet.IUPAC.IUPACUnambiguousDNA
Bio.Alphabet.IUPAC.IUPACUnambiguousRNA
Bio.Alphabet.NucleotideAlphabet
Bio.Alphabet.ProteinAlphabet
Bio.Alphabet.Reduced.HPModel
Bio.Alphabet.Reduced.Murphy10
Bio.Alphabet.Reduced.Murphy15
Bio.Alphabet.Reduced.Murphy4
Bio.Alphabet.Reduced.Murphy8
Bio.Alphabet.Reduced.PC5
Bio.Alphabet.RNAAlphabet
Bio.Alphabet.SecondaryStructure
Bio.Alphabet.SingleLetterAlphabet
Bio.Alphabet.ThreeLetterProtein
Bio.Application.AbstractCommandline
Bio.Application.ApplicationResult
Bio.Blast.Applications.BlastallCommandline
Bio.Blast.Applications.FastacmdCommandline
Bio.Blast.NCBIStandalone.BlastErrorParser
Bio.Blast.NCBIStandalone.BlastParser
Bio.Blast.NCBIStandalone.Iterator
Bio.Blast.NCBIStandalone.PSIBlastParser
Bio.Blast.NCBIWWW.BlastParser
Bio.Blast.NCBIXML.BlastParser
Bio.Blast.ParseBlastTable.BlastTableEntry
Bio.Blast.ParseBlastTable.BlastTableReader
Bio.Blast.ParseBlastTable.BlastTableRec
Bio.Blast.Record.Alignment
Bio.Blast.Record.Blast
Bio.Blast.Record.DatabaseReport
Bio.Blast.Record.Description
Bio.Blast.Record.Header
Bio.Blast.Record.HSP
Bio.Blast.Record.MultipleAlignment
Bio.Blast.Record.Parameters
Bio.Blast.Record.PSIBlast
Bio.Blast.Record.Round
Bio.builders.Search.search.BuildSearch
Bio.builders.SeqRecord.sequence.BuildSeqRecord
Bio.CAPS.CAPSMap
Bio.CAPS.DifferentialCutsite
Bio.Compass.Iterator
Bio.Compass.Record
Bio.Compass.RecordParser
Bio.config.DBRegistry.BioCorbaDB
Bio.config.DBRegistry.BioSQLDB
Bio.config.DBRegistry.CGIDB
Bio.config.DBRegistry.DBGroup
Bio.config.DBRegistry.DBObject
Bio.config.DBRegistry.DBRegistry
Bio.config.DBRegistry.EUtilsDB
Bio.config.DBRegistry.IndexedFileDB
Bio.config.DBRegistry.TextLikeMixin
Bio.config.FormatRegistry.FormatGroup
Bio.config.FormatRegistry.FormatObject
Bio.config.FormatRegistry.FormatRegistry
Bio.config.Registry.RegisterableGroup
Bio.config.Registry.RegisterableObject
Bio.config.Registry.Registry
Bio.config.SeqDBRegistry.SeqDBRegistry
Bio.Crystal.Chain
Bio.Crystal.Crystal
Bio.Crystal.Hetero
Bio.Data.CodonTable.AmbiguousCodonTable
Bio.Data.CodonTable.AmbiguousForwardTable
Bio.Data.CodonTable.CodonTable
Bio.Data.CodonTable.NCBICodonTable
Bio.Data.CodonTable.NCBICodonTableDNA
Bio.Data.CodonTable.NCBICodonTableRNA
Bio.DBXRef.BioformatDBName
Bio.DBXRef.DBXRef
Bio.DBXRef.UnknownDBName
Bio.Decode.DecodeParser
Bio.Decode.DecodeScanner
Bio.Decode.Float
Bio.Decode.Function
Bio.Decode.FunctionCall
Bio.Decode.FunctionCallChain
Bio.Decode.FunctionName
Bio.Decode.Integer
Bio.Decode.String
Bio.Decode.Token
Bio.Decode.ValueToken
Bio.Emboss.Applications.EConsenseCommandline
Bio.Emboss.Applications.EInvertedCommandline
Bio.Emboss.Applications.ENeighborCommandline
Bio.Emboss.Applications.EProtDistCommandline
Bio.Emboss.Applications.EProtParsCommandline
Bio.Emboss.Applications.ESeqBootCommandline
Bio.Emboss.Applications.Est2GenomeCommandline
Bio.Emboss.Applications.ETandemCommandline
Bio.Emboss.Applications.FuzznucCommandline
Bio.Emboss.Applications.PalindromeCommandline
Bio.Emboss.Applications.Primer3Commandline
Bio.Emboss.Applications.PrimerSearchCommandline
Bio.Emboss.Applications.TranalignCommandline
Bio.Emboss.Applications.WaterCommandline
Bio.Emboss.Primer.Primer3Parser
Bio.Emboss.Primer.Primer3Primers
Bio.Emboss.Primer.Primer3Record
Bio.Emboss.Primer.PrimerSearchAmplifier
Bio.Emboss.Primer.PrimerSearchInputRecord
Bio.Emboss.Primer.PrimerSearchOutputRecord
Bio.Emboss.Primer.PrimerSearchParser
Bio.Enzyme.DataRecord
Bio.Enzyme.EnzymeRecord
Bio.Enzyme.Iterator
Bio.Enzyme.RecordParser
Bio.EUtils.Config.DatabaseDict
Bio.EUtils.Config.DatabaseInfo
Bio.EUtils.Datatypes.And
Bio.EUtils.Datatypes.BinaryOp
Bio.EUtils.Datatypes.CheckLinkSet
Bio.EUtils.Datatypes.Date
Bio.EUtils.Datatypes.DateRange
Bio.EUtils.Datatypes.DBIds
Bio.EUtils.Datatypes.ErrorProblem
Bio.EUtils.Datatypes.Expression
Bio.EUtils.Datatypes.FieldNotFound
Bio.EUtils.Datatypes.IdCheck
Bio.EUtils.Datatypes.IdUrlSet
Bio.EUtils.Datatypes.Link
Bio.EUtils.Datatypes.LinkSetDb
Bio.EUtils.Datatypes.LinksLinkSet
Bio.EUtils.Datatypes.NeighborLinkSet
Bio.EUtils.Datatypes.Not
Bio.EUtils.Datatypes.ObjUrl
Bio.EUtils.Datatypes.Or
Bio.EUtils.Datatypes.OutputMessage
Bio.EUtils.Datatypes.PhraseIgnored
Bio.EUtils.Datatypes.PhraseNotFound
Bio.EUtils.Datatypes.PostResult
Bio.EUtils.Datatypes.Problem
Bio.EUtils.Datatypes.Provider
Bio.EUtils.Datatypes.QuotedPhraseNotFound
Bio.EUtils.Datatypes.Range
Bio.EUtils.Datatypes.SearchResult
Bio.EUtils.Datatypes.Summary
Bio.EUtils.Datatypes.Term
Bio.EUtils.Datatypes.WarningProblem
Bio.EUtils.Datatypes.WithinNDays
Bio.EUtils.DBIdsClient.BaseDBIdsRecordSet
Bio.EUtils.DBIdsClient.DBIdsClient
Bio.EUtils.DBIdsClient.DBIdsLookup
Bio.EUtils.DBIdsClient.DBIdsRecord
Bio.EUtils.DBIdsClient.PublicationDBIdsFetchMixin
Bio.EUtils.DBIdsClient.PublicationDBIdsRecord
Bio.EUtils.DBIdsClient.PublicationDBIdsRecordSet
Bio.EUtils.DBIdsClient.SequenceDBIdsFetchMixin
Bio.EUtils.DBIdsClient.SequenceDBIdsRecord
Bio.EUtils.DBIdsClient.SequenceDBIdsRecordSet
Bio.EUtils.DTDs.eInfo_020511.Count
Bio.EUtils.DTDs.eInfo_020511.DbInfo
Bio.EUtils.DTDs.eInfo_020511.DbList
Bio.EUtils.DTDs.eInfo_020511.DbName
Bio.EUtils.DTDs.eInfo_020511.DbTo
Bio.EUtils.DTDs.eInfo_020511.Descriptor
Bio.EUtils.DTDs.eInfo_020511.eInfoResult
Bio.EUtils.DTDs.eInfo_020511.ERROR
Bio.EUtils.DTDs.eInfo_020511.Field
Bio.EUtils.DTDs.eInfo_020511.FiledList
Bio.EUtils.DTDs.eInfo_020511.Hierarchy
Bio.EUtils.DTDs.eInfo_020511.IsDate
Bio.EUtils.DTDs.eInfo_020511.IsNumerical
Bio.EUtils.DTDs.eInfo_020511.Link
Bio.EUtils.DTDs.eInfo_020511.LinkList
Bio.EUtils.DTDs.eInfo_020511.Menu
Bio.EUtils.DTDs.eInfo_020511.MenuName
Bio.EUtils.DTDs.eInfo_020511.Name
Bio.EUtils.DTDs.eInfo_020511.SingleToken
Bio.EUtils.DTDs.eInfo_020511.TermCount
Bio.EUtils.DTDs.eLink_020511.Attribute
Bio.EUtils.DTDs.eLink_020511.DbFrom
Bio.EUtils.DTDs.eLink_020511.DbTo
Bio.EUtils.DTDs.eLink_020511.eLinkResult
Bio.EUtils.DTDs.eLink_020511.ERROR
Bio.EUtils.DTDs.eLink_020511.IconUrl
Bio.EUtils.DTDs.eLink_020511.Id
Bio.EUtils.DTDs.eLink_020511.IdCheckList
Bio.EUtils.DTDs.eLink_020511.IdList
Bio.EUtils.DTDs.eLink_020511.IdUrlList
Bio.EUtils.DTDs.eLink_020511.IdUrlSet
Bio.EUtils.DTDs.eLink_020511.Info
Bio.EUtils.DTDs.eLink_020511.Link
Bio.EUtils.DTDs.eLink_020511.LinkName
Bio.EUtils.DTDs.eLink_020511.LinkSet
Bio.EUtils.DTDs.eLink_020511.LinkSetDb
Bio.EUtils.DTDs.eLink_020511.Name
Bio.EUtils.DTDs.eLink_020511.NameAbbr
Bio.EUtils.DTDs.eLink_020511.ObjUrl
Bio.EUtils.DTDs.eLink_020511.Provider
Bio.EUtils.DTDs.eLink_020511.Score
Bio.EUtils.DTDs.eLink_020511.SubjectType
Bio.EUtils.DTDs.eLink_020511.Url
Bio.EUtils.DTDs.ePost_020511.ePostResult
Bio.EUtils.DTDs.ePost_020511.ERROR
Bio.EUtils.DTDs.ePost_020511.Id
Bio.EUtils.DTDs.ePost_020511.InvalidIdList
Bio.EUtils.DTDs.ePost_020511.QueryKey
Bio.EUtils.DTDs.ePost_020511.WebEnv
Bio.EUtils.DTDs.eSearch_020511.Count
Bio.EUtils.DTDs.eSearch_020511.ERROR
Bio.EUtils.DTDs.eSearch_020511.ErrorList
Bio.EUtils.DTDs.eSearch_020511.eSearchResult
Bio.EUtils.DTDs.eSearch_020511.Explode
Bio.EUtils.DTDs.eSearch_020511.Field
Bio.EUtils.DTDs.eSearch_020511.FieldNotFound
Bio.EUtils.DTDs.eSearch_020511.From
Bio.EUtils.DTDs.eSearch_020511.Id
Bio.EUtils.DTDs.eSearch_020511.IdList
Bio.EUtils.DTDs.eSearch_020511.OP
Bio.EUtils.DTDs.eSearch_020511.OutputMessage
Bio.EUtils.DTDs.eSearch_020511.PhraseIgnored
Bio.EUtils.DTDs.eSearch_020511.PhraseNotFound
Bio.EUtils.DTDs.eSearch_020511.QueryKey
Bio.EUtils.DTDs.eSearch_020511.QueryTranslation
Bio.EUtils.DTDs.eSearch_020511.QuotedPhraseNotFound
Bio.EUtils.DTDs.eSearch_020511.RetMax
Bio.EUtils.DTDs.eSearch_020511.RetStart
Bio.EUtils.DTDs.eSearch_020511.Term
Bio.EUtils.DTDs.eSearch_020511.TermSet
Bio.EUtils.DTDs.eSearch_020511.To
Bio.EUtils.DTDs.eSearch_020511.Translation
Bio.EUtils.DTDs.eSearch_020511.TranslationSet
Bio.EUtils.DTDs.eSearch_020511.TranslationStack
Bio.EUtils.DTDs.eSearch_020511.WarningList
Bio.EUtils.DTDs.eSearch_020511.WebEnv
Bio.EUtils.DTDs.eSummary_020511.DocSum
Bio.EUtils.DTDs.eSummary_020511.ERROR
Bio.EUtils.DTDs.eSummary_020511.eSummaryResult
Bio.EUtils.DTDs.eSummary_020511.Id
Bio.EUtils.DTDs.eSummary_020511.Item
Bio.EUtils.DTDs.LinkOut.apad
Bio.EUtils.DTDs.LinkOut.Attribute
Bio.EUtils.DTDs.LinkOut.Base
Bio.EUtils.DTDs.LinkOut.Brief
Bio.EUtils.DTDs.LinkOut.Database
Bio.EUtils.DTDs.LinkOut.ExclQuery
Bio.EUtils.DTDs.LinkOut.IconUrl
Bio.EUtils.DTDs.LinkOut.InclQuery
Bio.EUtils.DTDs.LinkOut.Link
Bio.EUtils.DTDs.LinkOut.LinkId
Bio.EUtils.DTDs.LinkOut.LinkSet
Bio.EUtils.DTDs.LinkOut.Name
Bio.EUtils.DTDs.LinkOut.NameAbbr
Bio.EUtils.DTDs.LinkOut.normalize
Bio.EUtils.DTDs.LinkOut.ObjectList
Bio.EUtils.DTDs.LinkOut.ObjectSelector
Bio.EUtils.DTDs.LinkOut.ObjectUrl
Bio.EUtils.DTDs.LinkOut.ObjId
Bio.EUtils.DTDs.LinkOut.pad
Bio.EUtils.DTDs.LinkOut.Provider
Bio.EUtils.DTDs.LinkOut.ProviderId
Bio.EUtils.DTDs.LinkOut.Query
Bio.EUtils.DTDs.LinkOut.Rule
Bio.EUtils.DTDs.LinkOut.RuleToMany
Bio.EUtils.DTDs.LinkOut.Separator
Bio.EUtils.DTDs.LinkOut.strip
Bio.EUtils.DTDs.LinkOut.SubjectType
Bio.EUtils.DTDs.LinkOut.SubObjectSelector
Bio.EUtils.DTDs.LinkOut.SubProvider
Bio.EUtils.DTDs.LinkOut.subs
Bio.EUtils.DTDs.LinkOut.tolower
Bio.EUtils.DTDs.LinkOut.toupper
Bio.EUtils.DTDs.LinkOut.Url
Bio.EUtils.DTDs.LinkOut.UrlName
Bio.EUtils.HistoryClient.BaseHistoryRecordSet
Bio.EUtils.HistoryClient.HistoryClient
Bio.EUtils.HistoryClient.HistoryCookie
Bio.EUtils.HistoryClient.HistoryLookup
Bio.EUtils.HistoryClient.HistoryRecord
Bio.EUtils.HistoryClient.PublicationHistoryFetchMixin
Bio.EUtils.HistoryClient.PublicationHistoryRecord
Bio.EUtils.HistoryClient.PublicationHistoryRecordSet
Bio.EUtils.HistoryClient.SequenceHistoryFetchMixin
Bio.EUtils.HistoryClient.SequenceHistoryRecord
Bio.EUtils.HistoryClient.SequenceHistoryRecordSet
Bio.EUtils.Mixins.LinkMixin
Bio.EUtils.Mixins.PublicationFetchMixin
Bio.EUtils.Mixins.SequenceFetchMixin
Bio.EUtils.MultiDict.OrderedMultiDict
Bio.EUtils.MultiDict.UnorderedMultiDict
Bio.EUtils.parse.GetObject
Bio.EUtils.parse.UsePOMParser
Bio.EUtils.POM.AttributeList
Bio.EUtils.POM.CDATA
Bio.EUtils.POM.Comment
Bio.EUtils.POM.ContentModel
Bio.EUtils.POM.DTDConsumerForSourceGeneration
Bio.EUtils.POM.ElementNode
Bio.EUtils.POM.ENTITIES
Bio.EUtils.POM.ENTITY
Bio.EUtils.POM.Enumeration
Bio.EUtils.POM.Fragments
Bio.EUtils.POM.ID
Bio.EUtils.POM.IDREF
Bio.EUtils.POM.IDREFS
Bio.EUtils.POM.IndentedText
Bio.EUtils.POM.NMTOKEN
Bio.EUtils.POM.NMTOKENS
Bio.EUtils.POM.ObjectParserHandler
Bio.EUtils.POM.POMDocument
Bio.EUtils.POM.Text
Bio.EUtils.POM.XMLAttribute
Bio.EUtils.ReseekFile.ReseekFile
Bio.EUtils.sourcegen.ClassHolder
Bio.EUtils.sourcegen.FunctionHolder
Bio.EUtils.sourcegen.MethodHolder
Bio.EUtils.sourcegen.SourceFile
Bio.EUtils.sourcegen.SourceGen
Bio.EUtils.ThinClient.ThinClient
Bio.File.MyParser
Bio.File.SGMLHandle
Bio.File.SGMLStripper
Bio.File.UndoHandle
Bio.FilteredReader.FilteredReader
Bio.FormatIO.FormatIO
Bio.FormatIO.FormatIOIterator
Bio.FSSP.fssp_rec.align
Bio.FSSP.fssp_rec.fff_rec
Bio.FSSP.FSSPAlignDict
Bio.FSSP.FSSPAlignRec
Bio.FSSP.FSSPHeader
Bio.FSSP.FSSPSumDict
Bio.FSSP.FSSPSumRec
Bio.FSSP.FSSPTools.FSSPAlign
Bio.FSSP.FSSPTools.FSSPMultAlign
Bio.FSSP.PosAlign
Bio.GA.Crossover.General.SafeFitnessCrossover
Bio.GA.Crossover.GeneralPoint.GeneralPointCrossover
Bio.GA.Crossover.GeneralPoint.InterleaveCrossover
Bio.GA.Crossover.GeneralPoint.TwoCrossover
Bio.GA.Crossover.Point.SinglePointCrossover
Bio.GA.Crossover.TwoPoint.TwoPointCrossover
Bio.GA.Crossover.Uniform.UniformCrossover
Bio.GA.Evolver.GenerationEvolver
Bio.GA.Evolver.SteadyStateEvolver
Bio.GA.Mutation.General.SafeFitnessMutation
Bio.GA.Mutation.Simple.ConversionMutation
Bio.GA.Mutation.Simple.SinglePositionMutation
Bio.GA.Organism.Organism
Bio.GA.Repair.Stabilizing.AmbiguousRepair
Bio.GA.Selection.Abstract.AbstractSelection
Bio.GA.Selection.Diversity.DiversitySelection
Bio.GA.Selection.RouletteWheel.RouletteWheelSelection
Bio.GA.Selection.Tournament.TournamentSelection
Bio.Gobase.Dictionary
Bio.Gobase.GeneRecord
Bio.Gobase.Iterator
Bio.Gobase.ProteinRecord
Bio.Gobase.Record
Bio.Gobase.RecordParser
Bio.Gobase.SequenceRecord
Bio.Graphics.BasicChromosome.Chromosome
Bio.Graphics.BasicChromosome.ChromosomeSegment
Bio.Graphics.BasicChromosome.Organism
Bio.Graphics.BasicChromosome.TelomereSegment
Bio.Graphics.Comparative.ComparativeScatterPlot
Bio.Graphics.DisplayRepresentation.ChromosomeCounts
Bio.Graphics.Distribution.BarChartDistribution
Bio.Graphics.Distribution.DistributionPage
Bio.Graphics.Distribution.LineDistribution
Bio.HMM.DynamicProgramming.AbstractDPAlgorithms
Bio.HMM.DynamicProgramming.LogDPAlgorithms
Bio.HMM.DynamicProgramming.ScaledDPAlgorithms
Bio.HMM.MarkovModel.HiddenMarkovModel
Bio.HMM.MarkovModel.MarkovModelBuilder
Bio.HMM.Trainer.AbstractTrainer
Bio.HMM.Trainer.BaumWelchTrainer
Bio.HMM.Trainer.KnownStateTrainer
Bio.HMM.Trainer.TrainingSequence
Bio.HotRand.HotCache
Bio.HotRand.HotRandom
Bio.InterPro.InterProParser
Bio.InterPro.Record
Bio.kNN.kNN
Bio.LogisticRegression.LogisticRegression
Bio.MarkovModel.MarkovModel
Bio.MarkupEditor.MarkupEditor
Bio.MarkupEditor.MidPoint
Bio.MaxEntropy.MaxEntropy
Bio.Medline.Iterator
Bio.Medline.NLMMedlineXML.Citation
Bio.Medline.NLMMedlineXML.CitationParser
Bio.Medline.Record
Bio.Medline.RecordParser
Bio.MEME.Motif.Instance
Bio.MEME.Motif.MEMEMotif
Bio.MEME.Motif.Motif
Bio.MEME.Parser.MASTParser
Bio.MEME.Parser.MASTRecord
Bio.MEME.Parser.MEMEParser
Bio.MEME.Parser.MEMERecord
Bio.Mindy.BaseDB.DictLookup
Bio.Mindy.BaseDB.OpenDB
Bio.Mindy.BaseDB.WriteDB
Bio.Mindy.FlatDB.BaseFlatDB
Bio.Mindy.FlatDB.BisectFile
Bio.Mindy.FlatDB.DiskFlatDB
Bio.Mindy.FlatDB.MemoryFlatDB
Bio.Mindy.FlatDB.PrimaryNamespace
Bio.Mindy.FlatDB.PrimaryTable
Bio.Mindy.FlatDB.SecondaryNamespace
Bio.Mindy.FlatDB.SecondaryTable
Bio.Mindy.Location.Location
Bio.Mindy.SimpleSeqRecord.BaseSeqRecordIndexer
Bio.Mindy.SimpleSeqRecord.FixDocumentBuilder
Bio.Mindy.SimpleSeqRecord.FunctionIndexer
Bio.Mindy.SimpleSeqRecord.SimpleIndexer
Bio.Mindy.XPath.GrabXPathNodes
Bio.MultiProc.Scheduler.Scheduler
Bio.MultiProc.Task.Task
Bio.NaiveBayes.NaiveBayes
Bio.Ndb.NdbParser
Bio.Ndb.Record
Bio.NetCatch.ExtractUrls
Bio.NetCatch.NetCatch
Bio.NetCatch.Url
Bio.NeuralNetwork.BackPropagation.Layer.AbstractLayer
Bio.NeuralNetwork.BackPropagation.Layer.HiddenLayer
Bio.NeuralNetwork.BackPropagation.Layer.InputLayer
Bio.NeuralNetwork.BackPropagation.Layer.OutputLayer
Bio.NeuralNetwork.BackPropagation.Network.BasicNetwork
Bio.NeuralNetwork.Gene.Motif.MotifCoder
Bio.NeuralNetwork.Gene.Motif.MotifFinder
Bio.NeuralNetwork.Gene.Pattern.PatternIO
Bio.NeuralNetwork.Gene.Pattern.PatternRepository
Bio.NeuralNetwork.Gene.Schema.DifferentialSchemaFitness
Bio.NeuralNetwork.Gene.Schema.GeneticAlgorithmFinder
Bio.NeuralNetwork.Gene.Schema.MostCountSchemaFitness
Bio.NeuralNetwork.Gene.Schema.RandomMotifGenerator
Bio.NeuralNetwork.Gene.Schema.Schema
Bio.NeuralNetwork.Gene.Schema.SchemaCoder
Bio.NeuralNetwork.Gene.Schema.SchemaDNAAlphabet
Bio.NeuralNetwork.Gene.Schema.SchemaFactory
Bio.NeuralNetwork.Gene.Schema.SchemaFinder
Bio.NeuralNetwork.Gene.Schema.SimpleFinisher
Bio.NeuralNetwork.Gene.Signature.SignatureCoder
Bio.NeuralNetwork.Gene.Signature.SignatureFinder
Bio.NeuralNetwork.StopTraining.ValidationIncreaseStop
Bio.NeuralNetwork.Training.ExampleManager
Bio.NeuralNetwork.Training.TrainingExample
Bio.Nexus.Nexus.Block
Bio.Nexus.Nexus.CharBuffer
Bio.Nexus.Nexus.Commandline
Bio.Nexus.Nexus.Nexus
Bio.Nexus.Nexus.StepMatrix
Bio.Nexus.Nodes.Chain
Bio.Nexus.Nodes.Node
Bio.Nexus.Trees.NodeData
Bio.Nexus.Trees.Tree
Bio.NMR.xpktools.Peaklist
Bio.NMR.xpktools.XpkEntry
Bio.pairwise2.affine_penalty
Bio.pairwise2.dictionary_match
Bio.pairwise2.identity_match
Bio.Parsers.spark.GenericASTBuilder
Bio.Parsers.spark.GenericASTMatcher
Bio.Parsers.spark.GenericASTTraversal
Bio.Parsers.spark.GenericASTTraversalPruningException
Bio.Parsers.spark.GenericParser
Bio.Parsers.spark.GenericScanner
Bio.ParserSupport.AbstractConsumer
Bio.ParserSupport.AbstractParser
Bio.ParserSupport.EventGenerator
Bio.ParserSupport.SGMLStrippingConsumer
Bio.ParserSupport.TaggingConsumer
Bio.Pathway.Interaction
Bio.Pathway.Network
Bio.Pathway.Reaction
Bio.Pathway.Rep.Graph.Graph
Bio.Pathway.Rep.HashSet.HashSet
Bio.Pathway.Rep.MultiGraph.MultiGraph
Bio.Pathway.System
Bio.PropertyManager.CreateDict
Bio.PropertyManager.PropertyManager
Bio.Prosite.Dictionary
Bio.Prosite.ExPASyDictionary
Bio.Prosite.Iterator
Bio.Prosite.Pattern.Prosite
Bio.Prosite.Pattern.PrositeAlphabet
Bio.Prosite.Pattern.PrositeMatch
Bio.Prosite.Pattern.PrositeTerm
Bio.Prosite.PatternHit
Bio.Prosite.Prodoc.Dictionary
Bio.Prosite.Prodoc.ExPASyDictionary
Bio.Prosite.Prodoc.Iterator
Bio.Prosite.Prodoc.Record
Bio.Prosite.Prodoc.RecordParser
Bio.Prosite.Prodoc.Reference
Bio.Prosite.Record
Bio.Prosite.RecordParser
Bio.PubMed.Dictionary
Bio.Rebase.Dictionary
Bio.Rebase.Iterator
Bio.Rebase.Record
Bio.Rebase.RecordParser
Bio.Search.Algorithm
Bio.Search.Database
Bio.Search.Hit
Bio.Search.HomologySeq
Bio.Search.HSP
Bio.Search.HSPSeq
Bio.Search.Query
Bio.Search.Search
Bio.Search.TableInfo
Bio.Seq.MutableSeq
Bio.Seq.Seq
Bio.SeqFeature.AbstractPosition
Bio.SeqFeature.AfterPosition
Bio.SeqFeature.BeforePosition
Bio.SeqFeature.BetweenPosition
Bio.SeqFeature.ExactPosition
Bio.SeqFeature.FeatureLocation
Bio.SeqFeature.OneOfPosition
Bio.SeqFeature.PositionGap
Bio.SeqFeature.Reference
Bio.SeqFeature.SeqFeature
Bio.SeqFeature.WithinPosition
Bio.SeqIO.FASTA.FastaReader
Bio.SeqIO.FASTA.FastaWriter
Bio.SeqIO.generic.ClustalFormat
Bio.SeqIO.generic.EMBLFormat
Bio.SeqIO.generic.FastaFormat
Bio.SeqIO.generic.GCGFormat
Bio.SeqIO.generic.GenericFormat
Bio.SeqIO.generic.LargeFastaFormat
Bio.SeqIO.generic.NexusFormat
Bio.SeqIO.generic.PirFormat
Bio.SeqIO.generic.ReadSeq
Bio.SeqIO.generic.SeqRecord
Bio.SeqRecord.SeqRecord
Bio.Sequencing.Ace.ACEFileRecord
Bio.Sequencing.Ace.ACEParser
Bio.Sequencing.Ace.af
Bio.Sequencing.Ace.bs
Bio.Sequencing.Ace.Contig
Bio.Sequencing.Ace.ct
Bio.Sequencing.Ace.ds
Bio.Sequencing.Ace.Iterator
Bio.Sequencing.Ace.qa
Bio.Sequencing.Ace.rd
Bio.Sequencing.Ace.Reads
Bio.Sequencing.Ace.RecordParser
Bio.Sequencing.Ace.rt
Bio.Sequencing.Ace.wa
Bio.Sequencing.Ace.wr
Bio.Sequencing.Phd.Iterator
Bio.Sequencing.Phd.Record
Bio.Sequencing.Phd.RecordParser
Bio.SGMLExtractor.LocalParser
Bio.SGMLExtractor.SGMLExtractor
Bio.SGMLExtractor.SGMLExtractorHandle
Bio.StdHandler.ConvertDispatchHandler
Bio.StdHandler.ConvertHandler
Bio.StdHandler.Feature
Bio.StdHandler.Handle_dbid
Bio.StdHandler.Handle_dbxref
Bio.StdHandler.Handle_description
Bio.StdHandler.Handle_feature_location
Bio.StdHandler.Handle_feature_qualifier
Bio.StdHandler.Handle_features
Bio.StdHandler.Handle_hsp
Bio.StdHandler.Handle_hsp_seqalign
Bio.StdHandler.Handle_search_header
Bio.StdHandler.Handle_search_info
Bio.StdHandler.Handle_search_table
Bio.StdHandler.Handle_sequence
Bio.StdHandler.RecognizeHandler
Bio.SubsMat.FreqTable.FreqTable
Bio.SubsMat.SeqMat
Bio.SVDSuperimposer.SVDSuperimposer.SVDSuperimposer
Bio.SwissProt.KeyWList.ListParser
Bio.SwissProt.SProt.Dictionary
Bio.SwissProt.SProt.ExPASyDictionary
Bio.SwissProt.SProt.Iterator
Bio.SwissProt.SProt.Record
Bio.SwissProt.SProt.RecordParser
Bio.SwissProt.SProt.Reference
Bio.SwissProt.SProt.SequenceParser
Bio.Transcribe.Transcribe
Bio.Translate.Translator
Bio.UniGene.Record
Bio.UniGene.UniGeneParser
Bio.Wise.psw.Alignment
Bio.Wise.psw.AlignmentColumn
Bio.Wise.psw.ColumnUnit
Bio.Writer.Writer
Bio.writers.SeqRecord.embl.WriteEmbl
Bio.writers.SeqRecord.empty.WriteEmpty
Bio.writers.SeqRecord.fasta.WriteFasta
Bio.WWW.RequestLimiter
BioSQL.BioSeq.DBSeq
BioSQL.BioSeq.DBSeqRecord
BioSQL.BioSeqDatabase.Adaptor
BioSQL.BioSeqDatabase.BioSeqDatabase
BioSQL.BioSeqDatabase.DBServer
BioSQL.DBUtils.Generic_dbutils
BioSQL.DBUtils.Mysql_dbutils
BioSQL.DBUtils.Pgdb_dbutils
BioSQL.DBUtils.Psycopg_dbutils
BioSQL.Loader.DatabaseLoader
BioSQL.Loader.DatabaseRemover
Martel.convert_re.GroupNames
Martel.Dispatch.Callback
Martel.Dispatch.Dispatcher
Martel.Dispatch.DispatchHandler
Martel.Dispatch.Multicall
Martel.Dispatch.MulticallEnd
Martel.Dispatch.MulticallStart
Martel.Dispatch.RemapEnd
Martel.Dispatch.RemapStart
Martel.Expression.Alt
Martel.Expression.Any
Martel.Expression.AnyEol
Martel.Expression.Assert
Martel.Expression.AtBeginning
Martel.Expression.AtEnd
Martel.Expression.Debug
Martel.Expression.Dot
Martel.Expression.Expression
Martel.Expression.ExpressionList
Martel.Expression.FastFeature
Martel.Expression.Group
Martel.Expression.GroupRef
Martel.Expression.HeaderFooter
Martel.Expression.Literal
Martel.Expression.MaxRepeat
Martel.Expression.NullOp
Martel.Expression.ParseRecords
Martel.Expression.PassThrough
Martel.Expression.Seq
Martel.Expression.Str
Martel.Generate.CheckAssert
Martel.Generate.CheckAssertNot
Martel.Generate.CheckGroupRef
Martel.Generate.GeneratorState
Martel.Generate.HandleRepeatCount
Martel.Generate.print_debug
Martel.Generate.print_info
Martel.Generate.SetGroupValue
Martel.Iterator.EventStream
Martel.Iterator.HeaderFooterEventStream
Martel.Iterator.Iterate
Martel.Iterator.Iterator
Martel.Iterator.IteratorHeaderFooter
Martel.Iterator.IteratorRecords
Martel.Iterator.RecordEventStream
Martel.Iterator.StoreEvents
Martel.IterParser.IterHeaderFooter
Martel.IterParser.IterRecords
Martel.LAX.ElementInfo
Martel.LAX.LAX
Martel.LAX.LAXAttrs
Martel.LAX.LAXPositions
Martel.msre_parse.Pattern
Martel.msre_parse.SubPattern
Martel.msre_parse.Tokenizer
Martel.Parser.HeaderFooterParser
Martel.Parser.MartelAttributeList
Martel.Parser.Parser
Martel.Parser.RecordParser
Martel.RecordReader.CountLines
Martel.RecordReader.EndsWith
Martel.RecordReader.Everything
Martel.RecordReader.Nothing
Martel.RecordReader.RecordReader
Martel.RecordReader.StartsWith
Martel.RecordReader.Until
Martel.test.support.CheckGood
Martel.test.support.Dump
Martel.test.support.Storage
Martel.test.test_attrs.GrabElements
Martel.test.test_delimiter.CatchFields
Martel.test.test_macros.Capture
Martel.test.test_optimize.GetErrorPos
Martel.test.test_Parser.CountErrors
Martel.test.test_Parser.CountRecords
All Exceptions
Bio.Blast.NCBIStandalone.LowQualityBlastError
Bio.Blast.NCBIStandalone.ShortQueryBlastError
Bio.CAPS.AlignmentHasDifferentLengthsError
Bio.Crystal.CrystalError
Bio.Crystal.Error
Bio.Data.CodonTable.TranslationError
Bio.EUtils.Datatypes.EUtilsError
Bio.EUtils.Datatypes.EUtilsSearchError
Bio.EUtils.POM.ValidationError
Bio.Nexus.Nexus.NexusError
Bio.Nexus.Nodes.ChainException
Bio.Nexus.Nodes.NodeException
Bio.Nexus.Trees.TreeError
Bio.SubsMat.BadMatrix
Bio.Wise.psw.AlignmentColumnFullException
Martel.msre_constants.error
Martel.Parser.ParserException
Martel.Parser.ParserIncompleteException
Martel.Parser.ParserPositionException
Martel.Parser.ParserRecordException
Martel.RecordReader.ReaderError
All Functions
_default_wrap
add_first_text_handler
add_int_handler
add_text_block_handler
add_text_decode_handler
add_text_dict_handler
add_text_handler
add_value_handler
align
align
AlignAce
all_pairs
alphabet
Alt
Any
AnyBut
application_name
application_version
asdict
Assert
AssertNot
attempt_read_and_call
back_transcribe
back_transcribe
back_translate
bf_search
blast
blastall
blastpgp
blasturl
Bol
byte_concat
calc_affine_penalty
calculate
calculate
calculate
calculate
Case
check_assert
check_assert_not
check_at_beginning
check_dicts
check_element
check_error_pos
chomp
chompchomp
choose_format
classify
classify
classify
classify
cmp_dicts
combine
compare
CompareAce
compile
compile_file
consensus
contents
convert_any
convert_assert
convert_assert_not
convert_at
convert_branch
convert_groupref
convert_in
convert_list
convert_literal
convert_max_repeat
convert_newline
convert_not_literal
convert_std_feature
convert_subpattern
convert_summary_Date
convert_summary_Date_string
convert_summary_Integer
convert_summary_Items
convert_summary_List
convert_summary_String
convert_summary_Unknown
copen_fn
copen_sys
count
count_monomers
count_records
crc64
create
create_berkeleydb
create_flatdb
data_table
database_name
database_num_letters
database_num_sequences
dbid
DBIds
dbxref
dbxref_dbid
dbxref_dbname
dbxref_negate
define_block
DelimitedFields
delimiter
description
description_block
description_line
df_search
difference
Digits
do_it
do_test
download_many
dump
dump_saved
efetch
elink
Empty
Eof
Eol
epost
equal_weight
escape
escape
escape
esearch
euclidean
euclidean_py
expand_template
extract_keywords
fast_dbxref
fcmp
feature
feature_block
feature_description
feature_location
feature_location_end
feature_location_start
feature_name
feature_qualifier
feature_qualifier_description
feature_qualifier_name
filter
find
find_anychar
find_related
find_states
find_terms
find_words
fix_punctuation
fixspaces
Float
float_param
float_stat
format_alignment
from_dbids
from_parser
function_population
gen_iterator
genClass
genComment
generate
generate_alt
generate_any
generate_assert
generate_at_beginning
generate_at_end
generate_debug
generate_dot
generate_eol
generate_group
generate_groupref
generate_literal
generate_max_repeat
generate_named_max_repeat
generate_null_op
generate_parser
generate_pass_through
generate_seq
generate_str
generic_run
genFunc
genImport
genMethod
get_dbutils
get_dtd_compiler
get_element
get_generator
get_interpro_entry
get_merge_text
get_mod_file
get_parser
get_prodoc_entry
get_prosite_entry
get_sourcefile
get_sprot_raw
get_start_end
Group
group_elem
group_elem
group_elem
group_elem
has_group
has_no_group
has_trailing_linefeed
hex_convert
hit
hit_description
hit_length
hsp
hsp_frame
hsp_seqalign
hsp_seqalign_homology_seq
hsp_seqalign_query_end
hsp_seqalign_query_leader
hsp_seqalign_query_name
hsp_seqalign_query_seq
hsp_seqalign_query_start
hsp_seqalign_subject_end
hsp_seqalign_subject_name
hsp_seqalign_subject_seq
hsp_seqalign_subject_start
hsp_strand
hsp_value
IF
index
index_file
index_file
index_file
index_file
index_file
index_many
indexesof
install_test_main
int_param
int_stat
intd
Integer
intersection
invert
is_absolute_url
is_blank_line
is_char
is_empty
is_firstchar
is_mergeable
isname
isname_with_attrs
itemindex
items
join_english
join_fixspaces
lcc_mult
lcc_simp
lchomp
list_ambiguous_codons
list_possible_proteins
load
local_test_main
logistic_function
lowess
main
main
main
main
main
main
make_1id
make_2id
make_back_table
make_decoder
make_expression
make_expression
make_log_odds_matrix
make_node
make_pattern
make_typechecked_decoder
makedict
match
match_all
match_sequence
matches_schema
MaxRepeat
merge_strings
mult_align
must_not_parse
must_parse
name_filter
NoCase
normalize
Number
observed_frequency_to_substitution_matrix
open
open
open_database
open_file
Opt
optimize
optimize_unnamed_groups
optimize_unnamed_groups_recursive
pairlist_to_dict
parse
parse
parse
parse_fetch_identifiers
parse_fetch_publication_xml
parse_fetch_sequence_xml
parse_lcheck
parse_line
parse_link_xml
parse_llinks
parse_ncheck
parse_neighbor_links
parse_post
parse_prlinks
parse_search
parse_simple_xpath
parse_single
parse_summary_xml
parse_template
pattern_mapping
percent_monomers
pmfetch
pmneighbor
pmqty
predictNOE
prepare_input_source
pretty_print_prediction
print_info_content
print_matrix
prosite_to_grouped_re
prosite_to_re
Punctuation
qblast
query
query_description
query_description_block
query_size
quotestrip
random_population
Re
read_and_call
read_and_call_until
read_and_call_while
read_config
read_count
read_freq
read_fssp
read_text_matrix
record
reduce_sequence
register_ncbi_table
remove_empty_line
remove_leading_whitespace
remove_useless_dot
Rep
Rep1
replace_entry
replace_groups
RepN
retrieve_single
reverse_complement
rfind_anychar
rint
rpsblast
run
safe_exp
safe_int
safe_log
safe_log2
safe_peekline
safe_readline
safename
save
scan
scan_sequence_expasy
scanprosite1
search
search_for
search_header
search_parameter
search_statistic
search_table
search_table_description
search_table_entry
search_table_value
select_names
Seq
sequence
sequence_block
Simple
simple_elem
simple_elem
simple_elem
simple_elem
SimpleRecordFilter
skip_empty_group
SkipLinesTo
SkipLinesUntil
Spaces
splitany
sprot_search_de
sprot_search_ful
SS
starts_with
Str
Str1
sum
sum_2ple
superdir
take
take_byfn
test
test
test
test
test
test
test
test
test
test
test
test
test
test
test
test
test
test
test
test
test1
test1
test1
test10
test11
test12
test13
test14
test15
test16
test17
test18
test19
test2
test2
test20
test3
test3
test4
test4
test5
test5
test6
test7
test8
test9
test__add__
test__or__
test_alt
test_any
test_assert
test_at_beginning
test_at_end
test_count
test_count_lines
test_count_lines
test_count_lines_lines
test_DelimitedFields
test_Digits
test_docstring
test_dot
test_end
test_end_lines
test_endswith
test_endswith_errors
test_endswith_exhaustive
test_endswith_generic
test_endswith_remainder
test_endswith_SP
test_escape
test_everything
test_everything
test_everything_lines
test_expand
test_fasta
test_file
test_filter
test_Float
test_group
test_group_names
test_groupref
test_header_footer1
test_header_footer1
test_header_footer2
test_header_footer2
test_header_footer3
test_header_footer3
test_header_footer4
test_header_footer4
test_header_footer5
test_header_footer5
test_header_footer6
test_header_footer6
test_header_footer7
test_header_footer7
test_header_footer8
test_header_footer_parser
test_hf1
test_hf2
test_hf3
test_hf4
test_hf5
test_hf6
test_hf7
test_hf8
test_literal
test_make_iterparsers1
test_make_iterparsers2
test_max_repeat
test_minimize
test_missing_end1
test_missing_end2
test_missing_end3
test_multi
test_nocase
test_nodes
test_none
test_nothing
test_nothing
test_nothing_lines
test_null_op
test_Punctuation
test_reader_parser
test_reads
test_record_parser
test_record_parser
test_ri1
test_ri2
test_ri3
test_same_tag
test_seq
test_single
test_Spaces
test_start
test_start_lines
test_startswith
test_startswith_errors
test_startswith_exhaustive
test_startswith_generic
test_startswith_remainder
test_startswith_SP
test_str
test_string
test_syntax
test_terms
test_times
test_ToEol
test_ToSep
test_Unprintable
test_until
test_until
test_until_lines
test_valid_names
test_Word
time_file
ToEol
ToSep
total_weight
total_weight_range
tr
track_position
train
train
train
train
train_bw
train_visible
transcribe
transcribe
translate
translate
translate_to_stop
two_mat_DJS
two_mat_relative_entropy
unescape
unescape
unescape_C
unescape_entities
ungap
Unprintable
UntilEol
UntilSep
validate_key
verify_alphabet
verify_pattern
Word
wrap_line
write_config
xpath_index
[show private | hide private]