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Download biojava-core JAR 5.0.0-alpha3 with all dependencies

Files of the artifact biojava-core version 5.0.0-alpha3 from the group org.biojava.

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Artifact biojava-core
Group org.biojava
Version 5.0.0-alpha3
Organization BioJava
URL http://www.biojava.org
License GNU LGPL v2
Dependencies amount 4
Dependencies slf4j-api, log4j-slf4j-impl, log4j-api, log4j-core,
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14 downloads

Source code of biojava-core version 5.0.0-alpha3

META-INF

META-INF.META-INF.MANIFEST.MF

META-INF.services

META-INF.services.META-INF.services.org.biojava.nbio.core.search.io.ResultFactory

demo

demo.demo.DemoSixFrameTranslation

demo.demo.ParseFastaFileDemo

matrices

matrices.matrices.AAINDEX.txt

matrices.matrices.blosum100.txt

matrices.matrices.blosum30.txt

matrices.matrices.blosum35.txt

matrices.matrices.blosum40.txt

matrices.matrices.blosum45.txt

matrices.matrices.blosum50.txt

matrices.matrices.blosum55.txt

matrices.matrices.blosum60.txt

matrices.matrices.blosum62.txt

matrices.matrices.blosum65.txt

matrices.matrices.blosum70.txt

matrices.matrices.blosum75.txt

matrices.matrices.blosum80.txt

matrices.matrices.blosum85.txt

matrices.matrices.blosum90.txt

matrices.matrices.gonnet250.txt

matrices.matrices.identity.txt

matrices.matrices.nuc-4_2.txt

matrices.matrices.nuc-4_4.txt

matrices.matrices.pam250.txt

org.biojava.nbio.core.alignment

org.biojava.nbio.core.alignment.org.biojava.nbio.core.alignment.SimpleAlignedSequence

org.biojava.nbio.core.alignment.org.biojava.nbio.core.alignment.SimpleProfile

org.biojava.nbio.core.alignment.org.biojava.nbio.core.alignment.SimpleProfilePair

org.biojava.nbio.core.alignment.org.biojava.nbio.core.alignment.SimpleSequencePair

org.biojava.nbio.core.alignment.matrices

org.biojava.nbio.core.alignment.matrices.org.biojava.nbio.core.alignment.matrices.AAIndexFileParser

org.biojava.nbio.core.alignment.matrices.org.biojava.nbio.core.alignment.matrices.AAIndexProvider

org.biojava.nbio.core.alignment.matrices.org.biojava.nbio.core.alignment.matrices.AAindexFactory

org.biojava.nbio.core.alignment.matrices.org.biojava.nbio.core.alignment.matrices.DefaultAAIndexProvider

org.biojava.nbio.core.alignment.matrices.org.biojava.nbio.core.alignment.matrices.ScaledSubstitutionMatrix

org.biojava.nbio.core.alignment.matrices.org.biojava.nbio.core.alignment.matrices.SimpleSubstitutionMatrix

org.biojava.nbio.core.alignment.matrices.org.biojava.nbio.core.alignment.matrices.SubstitutionMatrixHelper

org.biojava.nbio.core.alignment.template

org.biojava.nbio.core.alignment.template.org.biojava.nbio.core.alignment.template.AlignedSequence

org.biojava.nbio.core.alignment.template.org.biojava.nbio.core.alignment.template.MutableAlignedSequence

org.biojava.nbio.core.alignment.template.org.biojava.nbio.core.alignment.template.MutableProfile

org.biojava.nbio.core.alignment.template.org.biojava.nbio.core.alignment.template.MutableProfilePair

org.biojava.nbio.core.alignment.template.org.biojava.nbio.core.alignment.template.MutableSequencePair

org.biojava.nbio.core.alignment.template.org.biojava.nbio.core.alignment.template.Profile

org.biojava.nbio.core.alignment.template.org.biojava.nbio.core.alignment.template.ProfilePair

org.biojava.nbio.core.alignment.template.org.biojava.nbio.core.alignment.template.ProfileView

org.biojava.nbio.core.alignment.template.org.biojava.nbio.core.alignment.template.SequencePair

org.biojava.nbio.core.alignment.template.org.biojava.nbio.core.alignment.template.SubstitutionMatrix

org.biojava.nbio.core.exceptions

org.biojava.nbio.core.exceptions.org.biojava.nbio.core.exceptions.CompoundNotFoundException

org.biojava.nbio.core.exceptions.org.biojava.nbio.core.exceptions.Messages

org.biojava.nbio.core.exceptions.org.biojava.nbio.core.exceptions.ParserException

org.biojava.nbio.core.exceptions.org.biojava.nbio.core.exceptions.TranslationException

org.biojava.nbio.core.search.io

org.biojava.nbio.core.search.io.org.biojava.nbio.core.search.io.Hit

org.biojava.nbio.core.search.io.org.biojava.nbio.core.search.io.Hsp

org.biojava.nbio.core.search.io.org.biojava.nbio.core.search.io.Result

org.biojava.nbio.core.search.io.org.biojava.nbio.core.search.io.ResultFactory

org.biojava.nbio.core.search.io.org.biojava.nbio.core.search.io.SearchIO

org.biojava.nbio.core.search.io.blast

org.biojava.nbio.core.search.io.blast.org.biojava.nbio.core.search.io.blast.BlastHitBuilder

org.biojava.nbio.core.search.io.blast.org.biojava.nbio.core.search.io.blast.BlastHspBuilder

org.biojava.nbio.core.search.io.blast.org.biojava.nbio.core.search.io.blast.BlastResult

org.biojava.nbio.core.search.io.blast.org.biojava.nbio.core.search.io.blast.BlastResultBuilder

org.biojava.nbio.core.search.io.blast.org.biojava.nbio.core.search.io.blast.BlastTabularParser

org.biojava.nbio.core.search.io.blast.org.biojava.nbio.core.search.io.blast.BlastXMLParser

org.biojava.nbio.core.sequence

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.AccessionID

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.BasicSequence

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.CDSComparator

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.CDSSequence

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.ChromosomeSequence

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.DNASequence

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.DataSource

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.ExonComparator

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.ExonSequence

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.GeneSequence

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.IntronSequence

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.MultipleSequenceAlignment

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.ProteinSequence

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.RNASequence

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.SequenceComparator

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.SequenceOptimizationHints

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.StartCodonSequence

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.StopCodonSequence

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.Strand

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.TaxonomyID

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.TranscriptSequence

org.biojava.nbio.core.sequence.compound

org.biojava.nbio.core.sequence.compound.org.biojava.nbio.core.sequence.compound.AmbiguityDNACompoundSet

org.biojava.nbio.core.sequence.compound.org.biojava.nbio.core.sequence.compound.AmbiguityDNARNAHybridCompoundSet

org.biojava.nbio.core.sequence.compound.org.biojava.nbio.core.sequence.compound.AmbiguityRNACompoundSet

org.biojava.nbio.core.sequence.compound.org.biojava.nbio.core.sequence.compound.AminoAcidCompound

org.biojava.nbio.core.sequence.compound.org.biojava.nbio.core.sequence.compound.AminoAcidCompoundSet

org.biojava.nbio.core.sequence.compound.org.biojava.nbio.core.sequence.compound.CodonCompound

org.biojava.nbio.core.sequence.compound.org.biojava.nbio.core.sequence.compound.DNACompoundSet

org.biojava.nbio.core.sequence.compound.org.biojava.nbio.core.sequence.compound.NucleotideCompound

org.biojava.nbio.core.sequence.compound.org.biojava.nbio.core.sequence.compound.RNACompoundSet

org.biojava.nbio.core.sequence.edits

org.biojava.nbio.core.sequence.edits.org.biojava.nbio.core.sequence.edits.Edit

org.biojava.nbio.core.sequence.features

org.biojava.nbio.core.sequence.features.org.biojava.nbio.core.sequence.features.AbstractFeature

org.biojava.nbio.core.sequence.features.org.biojava.nbio.core.sequence.features.DBReferenceInfo

org.biojava.nbio.core.sequence.features.org.biojava.nbio.core.sequence.features.DatabaseReferenceInterface

org.biojava.nbio.core.sequence.features.org.biojava.nbio.core.sequence.features.FeatureDbReferenceInfo

org.biojava.nbio.core.sequence.features.org.biojava.nbio.core.sequence.features.FeatureInterface

org.biojava.nbio.core.sequence.features.org.biojava.nbio.core.sequence.features.FeatureRetriever

org.biojava.nbio.core.sequence.features.org.biojava.nbio.core.sequence.features.FeaturesKeyWordInterface

org.biojava.nbio.core.sequence.features.org.biojava.nbio.core.sequence.features.Qualifier

org.biojava.nbio.core.sequence.features.org.biojava.nbio.core.sequence.features.QualityFeature

org.biojava.nbio.core.sequence.features.org.biojava.nbio.core.sequence.features.QuantityFeature

org.biojava.nbio.core.sequence.features.org.biojava.nbio.core.sequence.features.TextFeature

org.biojava.nbio.core.sequence.io

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.BufferedReaderBytesRead

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.CasePreservingProteinSequenceCreator

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.DNASequenceCreator

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.FastaGeneWriter

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.FastaReader

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.FastaReaderHelper

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.FastaSequenceParser

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.FastaWriter

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.FastaWriterHelper

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.FileProxyDNASequenceCreator

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.FileProxyProteinSequenceCreator

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.GenbankReader

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.GenbankReaderHelper

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.GenbankSequenceParser

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.GenbankWriter

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.GenbankWriterHelper

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.GenericFastaHeaderFormat

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.GenericFastaHeaderParser

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.GenericGenbankHeaderFormat

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.GenericGenbankHeaderParser

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.GenericInsdcHeaderFormat

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.IUPACParser

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.PlainFastaHeaderParser

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.ProteinSequenceCreator

org.biojava.nbio.core.sequence.io.org.biojava.nbio.core.sequence.io.RNASequenceCreator

org.biojava.nbio.core.sequence.io.template

org.biojava.nbio.core.sequence.io.template.org.biojava.nbio.core.sequence.io.template.FastaHeaderFormatInterface

org.biojava.nbio.core.sequence.io.template.org.biojava.nbio.core.sequence.io.template.GenbankHeaderFormatInterface

org.biojava.nbio.core.sequence.io.template.org.biojava.nbio.core.sequence.io.template.SequenceCreatorInterface

org.biojava.nbio.core.sequence.io.template.org.biojava.nbio.core.sequence.io.template.SequenceHeaderParserInterface

org.biojava.nbio.core.sequence.io.template.org.biojava.nbio.core.sequence.io.template.SequenceParserInterface

org.biojava.nbio.core.sequence.io.util

org.biojava.nbio.core.sequence.io.util.org.biojava.nbio.core.sequence.io.util.ClasspathResource

org.biojava.nbio.core.sequence.io.util.org.biojava.nbio.core.sequence.io.util.IOUtils

org.biojava.nbio.core.sequence

org.biojava.nbio.core.sequence.org.biojava.nbio.core.sequence.iupac.txt

org.biojava.nbio.core.sequence.loader

org.biojava.nbio.core.sequence.loader.org.biojava.nbio.core.sequence.loader.ArrayListProxySequenceReader

org.biojava.nbio.core.sequence.loader.org.biojava.nbio.core.sequence.loader.GenbankProxySequenceReader

org.biojava.nbio.core.sequence.loader.org.biojava.nbio.core.sequence.loader.SequenceFileProxyLoader

org.biojava.nbio.core.sequence.loader.org.biojava.nbio.core.sequence.loader.StringProxySequenceReader

org.biojava.nbio.core.sequence.loader.org.biojava.nbio.core.sequence.loader.UniprotProxySequenceReader

org.biojava.nbio.core.sequence.location

org.biojava.nbio.core.sequence.location.org.biojava.nbio.core.sequence.location.FuzzyPoint

org.biojava.nbio.core.sequence.location.org.biojava.nbio.core.sequence.location.InsdcLocations

org.biojava.nbio.core.sequence.location.org.biojava.nbio.core.sequence.location.InsdcParser

org.biojava.nbio.core.sequence.location.org.biojava.nbio.core.sequence.location.LocationHelper

org.biojava.nbio.core.sequence.location.org.biojava.nbio.core.sequence.location.SequenceLocation

org.biojava.nbio.core.sequence.location.org.biojava.nbio.core.sequence.location.SimpleLocation

org.biojava.nbio.core.sequence.location.org.biojava.nbio.core.sequence.location.SimplePoint

org.biojava.nbio.core.sequence.location.template

org.biojava.nbio.core.sequence.location.template.org.biojava.nbio.core.sequence.location.template.AbstractLocation

org.biojava.nbio.core.sequence.location.template.org.biojava.nbio.core.sequence.location.template.AccesionedLocation

org.biojava.nbio.core.sequence.location.template.org.biojava.nbio.core.sequence.location.template.Location

org.biojava.nbio.core.sequence.location.template.org.biojava.nbio.core.sequence.location.template.Point

org.biojava.nbio.core.sequence.storage

org.biojava.nbio.core.sequence.storage.org.biojava.nbio.core.sequence.storage.ArrayListSequenceReader

org.biojava.nbio.core.sequence.storage.org.biojava.nbio.core.sequence.storage.BitSequenceReader

org.biojava.nbio.core.sequence.storage.org.biojava.nbio.core.sequence.storage.FourBitSequenceReader

org.biojava.nbio.core.sequence.storage.org.biojava.nbio.core.sequence.storage.JoiningSequenceReader

org.biojava.nbio.core.sequence.storage.org.biojava.nbio.core.sequence.storage.SequenceAsStringHelper

org.biojava.nbio.core.sequence.storage.org.biojava.nbio.core.sequence.storage.SingleCompoundSequenceReader

org.biojava.nbio.core.sequence.storage.org.biojava.nbio.core.sequence.storage.TwoBitSequenceReader

org.biojava.nbio.core.sequence.template

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.AbstractCompound

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.AbstractCompoundSet

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.AbstractCompoundTranslator

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.AbstractNucleotideCompoundSet

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.AbstractSequence

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.Accessioned

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.ComplementCompound

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.Compound

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.CompoundSet

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.CompoundTranslator

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.LightweightProfile

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.ProxySequenceReader

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.Sequence

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.SequenceMixin

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.SequenceProxyView

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.SequenceReader

org.biojava.nbio.core.sequence.template.org.biojava.nbio.core.sequence.template.SequenceView

org.biojava.nbio.core.sequence.transcription

org.biojava.nbio.core.sequence.transcription.org.biojava.nbio.core.sequence.transcription.CaseInsensitiveCompound

org.biojava.nbio.core.sequence.transcription.org.biojava.nbio.core.sequence.transcription.DNAToRNATranslator

org.biojava.nbio.core.sequence.transcription.org.biojava.nbio.core.sequence.transcription.Frame

org.biojava.nbio.core.sequence.transcription.org.biojava.nbio.core.sequence.transcription.RNAToAminoAcidTranslator

org.biojava.nbio.core.sequence.transcription.org.biojava.nbio.core.sequence.transcription.Table

org.biojava.nbio.core.sequence.transcription.org.biojava.nbio.core.sequence.transcription.TranscriptionEngine

org.biojava.nbio.core.sequence.views

org.biojava.nbio.core.sequence.views.org.biojava.nbio.core.sequence.views.ComplementSequenceView

org.biojava.nbio.core.sequence.views.org.biojava.nbio.core.sequence.views.ReversedSequenceView

org.biojava.nbio.core.sequence.views.org.biojava.nbio.core.sequence.views.RnaSequenceView

org.biojava.nbio.core.sequence.views.org.biojava.nbio.core.sequence.views.WindowedSequence

org.biojava.nbio.core.util

org.biojava.nbio.core.util.org.biojava.nbio.core.util.CRC64Checksum

org.biojava.nbio.core.util.org.biojava.nbio.core.util.ConcurrencyTools

org.biojava.nbio.core.util.org.biojava.nbio.core.util.Equals

org.biojava.nbio.core.util.org.biojava.nbio.core.util.FlatFileCache

org.biojava.nbio.core.util.org.biojava.nbio.core.util.Hashcoder

org.biojava.nbio.core.util.org.biojava.nbio.core.util.InputStreamProvider

org.biojava.nbio.core.util.org.biojava.nbio.core.util.PrettyXMLWriter

org.biojava.nbio.core.util.org.biojava.nbio.core.util.SequenceTools

org.biojava.nbio.core.util.org.biojava.nbio.core.util.SingleLinkageClusterer

org.biojava.nbio.core.util.org.biojava.nbio.core.util.SoftHashMap

org.biojava.nbio.core.util.org.biojava.nbio.core.util.StringManipulationHelper

org.biojava.nbio.core.util.org.biojava.nbio.core.util.UncompressInputStream

org.biojava.nbio.core.util.org.biojava.nbio.core.util.XMLHelper

org.biojava.nbio.core.util.org.biojava.nbio.core.util.XMLWriter

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