AUTHORS
BUGS
Bio/Align/AlignI.pm
Bio/Align/DNAStatistics.pm
Bio/Align/PairwiseStatistics.pm
Bio/Align/StatisticsI.pm
Bio/Align/Utilities.pm
Bio/AlignIO.pm
Bio/AlignIO/bl2seq.pm
Bio/AlignIO/clustalw.pm
Bio/AlignIO/emboss.pm
Bio/AlignIO/fasta.pm
Bio/AlignIO/mase.pm
Bio/AlignIO/mega.pm
Bio/AlignIO/meme.pm
Bio/AlignIO/msf.pm
Bio/AlignIO/nexus.pm
Bio/AlignIO/pfam.pm
Bio/AlignIO/phylip.pm
Bio/AlignIO/prodom.pm
Bio/AlignIO/psi.pm
Bio/AlignIO/selex.pm
Bio/AlignIO/stockholm.pm
Bio/AnalysisI.pm
Bio/AnalysisParserI.pm
Bio/AnalysisResultI.pm
Bio/AnnotatableI.pm
Bio/Annotation/AnnotationFactory.pm
Bio/Annotation/Collection.pm
Bio/Annotation/Comment.pm
Bio/Annotation/DBLink.pm
Bio/Annotation/OntologyTerm.pm
Bio/Annotation/Reference.pm
Bio/Annotation/SimpleValue.pm
Bio/Annotation/StructuredValue.pm
Bio/Annotation/TypeManager.pm
Bio/AnnotationCollectionI.pm
Bio/AnnotationI.pm
Bio/Assembly/Contig.pm
Bio/Assembly/ContigAnalysis.pm
Bio/Assembly/IO.pm
Bio/Assembly/IO/ace.pm
Bio/Assembly/IO/phrap.pm
Bio/Assembly/Scaffold.pm
Bio/Assembly/ScaffoldI.pm
Bio/Biblio.pm
Bio/Biblio/Article.pm
Bio/Biblio/BiblioBase.pm
Bio/Biblio/Book.pm
Bio/Biblio/BookArticle.pm
Bio/Biblio/IO.pm
Bio/Biblio/IO/medline2ref.pm
Bio/Biblio/IO/medlinexml.pm
Bio/Biblio/IO/pubmed2ref.pm
Bio/Biblio/IO/pubmedxml.pm
Bio/Biblio/Journal.pm
Bio/Biblio/JournalArticle.pm
Bio/Biblio/MedlineArticle.pm
Bio/Biblio/MedlineBook.pm
Bio/Biblio/MedlineBookArticle.pm
Bio/Biblio/MedlineJournal.pm
Bio/Biblio/MedlineJournalArticle.pm
Bio/Biblio/Organisation.pm
Bio/Biblio/Patent.pm
Bio/Biblio/Person.pm
Bio/Biblio/Proceeding.pm
Bio/Biblio/Provider.pm
Bio/Biblio/PubmedArticle.pm
Bio/Biblio/PubmedBookArticle.pm
Bio/Biblio/PubmedJournalArticle.pm
Bio/Biblio/Ref.pm
Bio/Biblio/Service.pm
Bio/Biblio/TechReport.pm
Bio/Biblio/Thesis.pm
Bio/Biblio/WebResource.pm
Bio/Cluster/ClusterFactory.pm
Bio/Cluster/FamilyI.pm
Bio/Cluster/SequenceFamily.pm
Bio/Cluster/UniGene.pm
Bio/Cluster/UniGeneI.pm
Bio/ClusterI.pm
Bio/ClusterIO.pm
Bio/ClusterIO/dbsnp.pm
Bio/ClusterIO/unigene.pm
Bio/Coordinate/Chain.pm
Bio/Coordinate/Collection.pm
Bio/Coordinate/ExtrapolatingPair.pm
Bio/Coordinate/GeneMapper.pm
Bio/Coordinate/Graph.pm
Bio/Coordinate/MapperI.pm
Bio/Coordinate/Pair.pm
Bio/Coordinate/Result.pm
Bio/Coordinate/Result/Gap.pm
Bio/Coordinate/Result/Match.pm
Bio/Coordinate/ResultI.pm
Bio/Coordinate/Utils.pm
Bio/DB/Ace.pm
Bio/DB/Biblio/biofetch.pm
Bio/DB/Biblio/soap.pm
Bio/DB/BiblioI.pm
Bio/DB/BioFetch.pm
Bio/DB/DBFetch.pm
Bio/DB/EMBL.pm
Bio/DB/Failover.pm
Bio/DB/Fasta.pm
Bio/DB/FileCache.pm
Bio/DB/Flat.pm
Bio/DB/Flat/BDB.pm
Bio/DB/Flat/BDB/embl.pm
Bio/DB/Flat/BDB/fasta.pm
Bio/DB/Flat/OBDAIndex.pm
Bio/DB/GDB.pm
Bio/DB/GFF.pm
Bio/DB/GFF/Adaptor/ace.pm
Bio/DB/GFF/Adaptor/biofetch.pm
Bio/DB/GFF/Adaptor/dbi.pm
Bio/DB/GFF/Adaptor/dbi/caching_handle.pm
Bio/DB/GFF/Adaptor/dbi/iterator.pm
Bio/DB/GFF/Adaptor/dbi/mysql.pm
Bio/DB/GFF/Adaptor/dbi/mysqlace.pm
Bio/DB/GFF/Adaptor/dbi/mysqlopt.pm
Bio/DB/GFF/Adaptor/dbi/oracle.pm
Bio/DB/GFF/Adaptor/dbi/oracleace.pm
Bio/DB/GFF/Adaptor/memory.pm
Bio/DB/GFF/Adaptor/memory_iterator.pm
Bio/DB/GFF/Aggregator.pm
Bio/DB/GFF/Aggregator/alignment.pm
Bio/DB/GFF/Aggregator/clone.pm
Bio/DB/GFF/Aggregator/coding.pm
Bio/DB/GFF/Aggregator/match.pm
Bio/DB/GFF/Aggregator/none.pm
Bio/DB/GFF/Aggregator/processed_transcript.pm
Bio/DB/GFF/Aggregator/transcript.pm
Bio/DB/GFF/Aggregator/ucsc_acembly.pm
Bio/DB/GFF/Aggregator/ucsc_ensgene.pm
Bio/DB/GFF/Aggregator/ucsc_genscan.pm
Bio/DB/GFF/Aggregator/ucsc_refgene.pm
Bio/DB/GFF/Aggregator/ucsc_sanger22.pm
Bio/DB/GFF/Aggregator/ucsc_sanger22pseudo.pm
Bio/DB/GFF/Aggregator/ucsc_softberry.pm
Bio/DB/GFF/Aggregator/ucsc_twinscan.pm
Bio/DB/GFF/Aggregator/ucsc_unigene.pm
Bio/DB/GFF/Featname.pm
Bio/DB/GFF/Feature.pm
Bio/DB/GFF/Homol.pm
Bio/DB/GFF/RelSegment.pm
Bio/DB/GFF/Segment.pm
Bio/DB/GFF/Typename.pm
Bio/DB/GFF/Util/Binning.pm
Bio/DB/GFF/Util/Rearrange.pm
Bio/DB/GenBank.pm
Bio/DB/GenPept.pm
Bio/DB/InMemoryCache.pm
Bio/DB/MANIFEST
Bio/DB/NCBIHelper.pm
Bio/DB/Query/GenBank.pm
Bio/DB/Query/WebQuery.pm
Bio/DB/QueryI.pm
Bio/DB/RandomAccessI.pm
Bio/DB/RefSeq.pm
Bio/DB/Registry.pm
Bio/DB/SeqI.pm
Bio/DB/SwissProt.pm
Bio/DB/Universal.pm
Bio/DB/UpdateableSeqI.pm
Bio/DB/WebDBSeqI.pm
Bio/DB/XEMBL.pm
Bio/DB/XEMBLService.pm
Bio/DBLinkContainerI.pm
Bio/Das/FeatureTypeI.pm
Bio/Das/SegmentI.pm
Bio/DasI.pm
Bio/DescribableI.pm
Bio/Event/EventGeneratorI.pm
Bio/Event/EventHandlerI.pm
Bio/Expression/FeatureI.pm
Bio/Expression/FeatureSet.pm
Bio/Factory/AnalysisI.pm
Bio/Factory/ApplicationFactoryI.pm
Bio/Factory/BlastHitFactory.pm
Bio/Factory/BlastResultFactory.pm
Bio/Factory/DriverFactory.pm
Bio/Factory/EMBOSS.pm
Bio/Factory/FTLocationFactory.pm
Bio/Factory/HitFactoryI.pm
Bio/Factory/LocationFactoryI.pm
Bio/Factory/MapFactoryI.pm
Bio/Factory/ObjectBuilderI.pm
Bio/Factory/ObjectFactory.pm
Bio/Factory/ObjectFactoryI.pm
Bio/Factory/ResultFactoryI.pm
Bio/Factory/SeqAnalysisParserFactory.pm
Bio/Factory/SeqAnalysisParserFactoryI.pm
Bio/Factory/SequenceFactoryI.pm
Bio/Factory/SequenceProcessorI.pm
Bio/Factory/SequenceStreamI.pm
Bio/Factory/TreeFactoryI.pm
Bio/FeatureHolderI.pm
Bio/Graphics.pm
Bio/Graphics/Feature.pm
Bio/Graphics/FeatureFile.pm
Bio/Graphics/Glyph.pm
Bio/Graphics/Glyph/Factory.pm
Bio/Graphics/Glyph/alignment.pm
Bio/Graphics/Glyph/anchored_arrow.pm
Bio/Graphics/Glyph/arrow.pm
Bio/Graphics/Glyph/box.pm
Bio/Graphics/Glyph/cds.pm
Bio/Graphics/Glyph/crossbox.pm
Bio/Graphics/Glyph/diamond.pm
Bio/Graphics/Glyph/dna.pm
Bio/Graphics/Glyph/dot.pm
Bio/Graphics/Glyph/ellipse.pm
Bio/Graphics/Glyph/ex.pm
Bio/Graphics/Glyph/extending_arrow.pm
Bio/Graphics/Glyph/generic.pm
Bio/Graphics/Glyph/graded_segments.pm
Bio/Graphics/Glyph/group.pm
Bio/Graphics/Glyph/heterogeneous_segments.pm
Bio/Graphics/Glyph/line.pm
Bio/Graphics/Glyph/oval.pm
Bio/Graphics/Glyph/pinsertion.pm
Bio/Graphics/Glyph/primers.pm
Bio/Graphics/Glyph/processed_transcript.pm
Bio/Graphics/Glyph/redgreen_box.pm
Bio/Graphics/Glyph/redgreen_segment.pm
Bio/Graphics/Glyph/rndrect.pm
Bio/Graphics/Glyph/ruler_arrow.pm
Bio/Graphics/Glyph/segmented_keyglyph.pm
Bio/Graphics/Glyph/segments.pm
Bio/Graphics/Glyph/span.pm
Bio/Graphics/Glyph/splice_site.pm
Bio/Graphics/Glyph/toomany.pm
Bio/Graphics/Glyph/track.pm
Bio/Graphics/Glyph/transcript.pm
Bio/Graphics/Glyph/transcript2.pm
Bio/Graphics/Glyph/translation.pm
Bio/Graphics/Glyph/triangle.pm
Bio/Graphics/Glyph/xyplot.pm
Bio/Graphics/Panel.pm
Bio/Graphics/Util.pm
Bio/IdCollectionI.pm
Bio/IdentifiableI.pm
Bio/Index/Abstract.pm
Bio/Index/AbstractSeq.pm
Bio/Index/Blast.pm
Bio/Index/EMBL.pm
Bio/Index/Fasta.pm
Bio/Index/Fastq.pm
Bio/Index/GenBank.pm
Bio/Index/SwissPfam.pm
Bio/Index/Swissprot.pm
Bio/LiveSeq/AARange.pm
Bio/LiveSeq/Chain.pm
Bio/LiveSeq/ChainI.pm
Bio/LiveSeq/DNA.pm
Bio/LiveSeq/Exon.pm
Bio/LiveSeq/Gene.pm
Bio/LiveSeq/IO/BioPerl.pm
Bio/LiveSeq/IO/Loader.pm
Bio/LiveSeq/IO/README
Bio/LiveSeq/IO/SRS.pm
Bio/LiveSeq/Intron.pm
Bio/LiveSeq/Mutation.pm
Bio/LiveSeq/Mutator.pm
Bio/LiveSeq/Prim_Transcript.pm
Bio/LiveSeq/Range.pm
Bio/LiveSeq/Repeat_Region.pm
Bio/LiveSeq/Repeat_Unit.pm
Bio/LiveSeq/SeqI.pm
Bio/LiveSeq/Transcript.pm
Bio/LiveSeq/Translation.pm
Bio/LocatableSeq.pm
Bio/Location/Atomic.pm
Bio/Location/AvWithinCoordPolicy.pm
Bio/Location/CoordinatePolicyI.pm
Bio/Location/Fuzzy.pm
Bio/Location/FuzzyLocationI.pm
Bio/Location/NarrowestCoordPolicy.pm
Bio/Location/Simple.pm
Bio/Location/Split.pm
Bio/Location/SplitLocationI.pm
Bio/Location/WidestCoordPolicy.pm
Bio/LocationI.pm
Bio/Map/CytoMap.pm
Bio/Map/CytoMarker.pm
Bio/Map/CytoPosition.pm
Bio/Map/LinkageMap.pm
Bio/Map/LinkagePosition.pm
Bio/Map/MapI.pm
Bio/Map/MappableI.pm
Bio/Map/Marker.pm
Bio/Map/MarkerI.pm
Bio/Map/Microsatellite.pm
Bio/Map/OrderedPosition.pm
Bio/Map/OrderedPositionWithDistance.pm
Bio/Map/Position.pm
Bio/Map/PositionI.pm
Bio/Map/SimpleMap.pm
Bio/MapIO.pm
Bio/MapIO/mapmaker.pm
Bio/Matrix/PhylipDist.pm
Bio/Ontology/GOterm.pm
Bio/Ontology/InterProTerm.pm
Bio/Ontology/Ontology.pm
Bio/Ontology/OntologyEngineI.pm
Bio/Ontology/OntologyI.pm
Bio/Ontology/OntologyStore.pm
Bio/Ontology/Path.pm
Bio/Ontology/PathI.pm
Bio/Ontology/Relationship.pm
Bio/Ontology/RelationshipFactory.pm
Bio/Ontology/RelationshipI.pm
Bio/Ontology/RelationshipType.pm
Bio/Ontology/SimpleGOEngine.pm
Bio/Ontology/SimpleOntologyEngine.pm
Bio/Ontology/Term.pm
Bio/Ontology/TermFactory.pm
Bio/Ontology/TermI.pm
Bio/OntologyIO.pm
Bio/OntologyIO/Handlers/InterProHandler.pm
Bio/OntologyIO/InterProParser.pm
Bio/OntologyIO/dagflat.pm
Bio/OntologyIO/goflat.pm
Bio/OntologyIO/soflat.pm
Bio/Perl.pm
Bio/Phenotype/Correlate.pm
Bio/Phenotype/Measure.pm
Bio/Phenotype/OMIM/MiniMIMentry.pm
Bio/Phenotype/OMIM/OMIMentry.pm
Bio/Phenotype/OMIM/OMIMentryAllelicVariant.pm
Bio/Phenotype/OMIM/OMIMparser.pm
Bio/Phenotype/Phenotype.pm
Bio/Phenotype/PhenotypeI.pm
Bio/PrimarySeq.pm
Bio/PrimarySeqI.pm
Bio/Range.pm
Bio/RangeI.pm
Bio/Root/Err.pm
Bio/Root/Exception.pm
Bio/Root/Global.pm
Bio/Root/HTTPget.pm
Bio/Root/IO.pm
Bio/Root/IOManager.pm
Bio/Root/Object.pm
Bio/Root/Root.pm
Bio/Root/RootI.pm
Bio/Root/Utilities.pm
Bio/Root/Vector.pm
Bio/Root/Xref.pm
Bio/Search/BlastUtils.pm
Bio/Search/DatabaseI.pm
Bio/Search/GenericDatabase.pm
Bio/Search/HSP/BlastHSP.pm
Bio/Search/HSP/FastaHSP.pm
Bio/Search/HSP/GenericHSP.pm
Bio/Search/HSP/HMMERHSP.pm
Bio/Search/HSP/HSPFactory.pm
Bio/Search/HSP/HSPI.pm
Bio/Search/HSP/WABAHSP.pm
Bio/Search/Hit/BlastHit.pm
Bio/Search/Hit/Fasta.pm
Bio/Search/Hit/GenericHit.pm
Bio/Search/Hit/HMMERHit.pm
Bio/Search/Hit/HitFactory.pm
Bio/Search/Hit/HitI.pm
Bio/Search/Processor.pm
Bio/Search/Result/BlastResult.pm
Bio/Search/Result/GenericResult.pm
Bio/Search/Result/HMMERResult.pm
Bio/Search/Result/ResultFactory.pm
Bio/Search/Result/ResultI.pm
Bio/Search/Result/WABAResult.pm
Bio/Search/SearchUtils.pm
Bio/SearchDist.pm
Bio/SearchIO.pm
Bio/SearchIO/EventHandlerI.pm
Bio/SearchIO/FastHitEventBuilder.pm
Bio/SearchIO/SearchResultEventBuilder.pm
Bio/SearchIO/SearchWriterI.pm
Bio/SearchIO/Writer/HSPTableWriter.pm
Bio/SearchIO/Writer/HTMLResultWriter.pm
Bio/SearchIO/Writer/HitTableWriter.pm
Bio/SearchIO/Writer/ResultTableWriter.pm
Bio/SearchIO/Writer/TextResultWriter.pm
Bio/SearchIO/blast.pm
Bio/SearchIO/blastxml.pm
Bio/SearchIO/chado.pm
Bio/SearchIO/chadosxpr.pm
Bio/SearchIO/exonerate.pm
Bio/SearchIO/fasta.pm
Bio/SearchIO/hmmer.pm
Bio/SearchIO/psiblast.pm
Bio/SearchIO/waba.pm
Bio/Seq.pm
Bio/Seq/BaseSeqProcessor.pm
Bio/Seq/EncodedSeq.pm
Bio/Seq/LargePrimarySeq.pm
Bio/Seq/LargeSeq.pm
Bio/Seq/PrimaryQual.pm
Bio/Seq/PrimedSeq.pm
Bio/Seq/QualI.pm
Bio/Seq/RichSeq.pm
Bio/Seq/RichSeqI.pm
Bio/Seq/SeqBuilder.pm
Bio/Seq/SeqFactory.pm
Bio/Seq/SeqFastaSpeedFactory.pm
Bio/Seq/SeqWithQuality.pm
Bio/Seq/SequenceTrace.pm
Bio/Seq/TraceI.pm
Bio/SeqAnalysisParserI.pm
Bio/SeqFeature/AnnotationAdaptor.pm
Bio/SeqFeature/Collection.pm
Bio/SeqFeature/CollectionI.pm
Bio/SeqFeature/Computation.pm
Bio/SeqFeature/FeaturePair.pm
Bio/SeqFeature/Gene/Exon.pm
Bio/SeqFeature/Gene/ExonI.pm
Bio/SeqFeature/Gene/GeneStructure.pm
Bio/SeqFeature/Gene/GeneStructureI.pm
Bio/SeqFeature/Gene/Intron.pm
Bio/SeqFeature/Gene/NC_Feature.pm
Bio/SeqFeature/Gene/Poly_A_site.pm
Bio/SeqFeature/Gene/Promoter.pm
Bio/SeqFeature/Gene/Transcript.pm
Bio/SeqFeature/Gene/TranscriptI.pm
Bio/SeqFeature/Gene/UTR.pm
Bio/SeqFeature/Generic.pm
Bio/SeqFeature/PositionProxy.pm
Bio/SeqFeature/Primer.pm
Bio/SeqFeature/Similarity.pm
Bio/SeqFeature/SimilarityPair.pm
Bio/SeqFeatureI.pm
Bio/SeqI.pm
Bio/SeqIO.pm
Bio/SeqIO/FTHelper.pm
Bio/SeqIO/MultiFile.pm
Bio/SeqIO/abi.pm
Bio/SeqIO/ace.pm
Bio/SeqIO/alf.pm
Bio/SeqIO/bsml.pm
Bio/SeqIO/chado.pm
Bio/SeqIO/chadoitext.pm
Bio/SeqIO/chadosxpr.pm
Bio/SeqIO/chadoxml.pm
Bio/SeqIO/ctf.pm
Bio/SeqIO/embl.pm
Bio/SeqIO/exp.pm
Bio/SeqIO/fasta.pm
Bio/SeqIO/fastq.pm
Bio/SeqIO/game.pm
Bio/SeqIO/game/featureHandler.pm
Bio/SeqIO/game/idHandler.pm
Bio/SeqIO/game/seqHandler.pm
Bio/SeqIO/gcg.pm
Bio/SeqIO/genbank.pm
Bio/SeqIO/largefasta.pm
Bio/SeqIO/locuslink.pm
Bio/SeqIO/phd.pm
Bio/SeqIO/pir.pm
Bio/SeqIO/pln.pm
Bio/SeqIO/qual.pm
Bio/SeqIO/raw.pm
Bio/SeqIO/scf.pm
Bio/SeqIO/swiss.pm
Bio/SeqIO/ztr.pm
Bio/SeqUtils.pm
Bio/SimpleAlign.pm
Bio/Species.pm
Bio/Structure/Atom.pm
Bio/Structure/Chain.pm
Bio/Structure/Entry.pm
Bio/Structure/IO.pm
Bio/Structure/IO/pdb.pm
Bio/Structure/Model.pm
Bio/Structure/Residue.pm
Bio/Structure/SecStr/DSSP/Res.pm
Bio/Structure/SecStr/STRIDE/Res.pm
Bio/Structure/StructureI.pm
Bio/Symbol/Alphabet.pm
Bio/Symbol/AlphabetI.pm
Bio/Symbol/DNAAlphabet.pm
Bio/Symbol/ProteinAlphabet.pm
Bio/Symbol/Symbol.pm
Bio/Symbol/SymbolI.pm
Bio/Taxonomy.pm
Bio/Taxonomy/Taxon.pm
Bio/Taxonomy/Tree.pm
Bio/Tools/AlignFactory.pm
Bio/Tools/Alignment/Consed.pm
Bio/Tools/Alignment/Trim.pm
Bio/Tools/AnalysisResult.pm
Bio/Tools/BPbl2seq.pm
Bio/Tools/BPlite.pm
Bio/Tools/BPlite/HSP.pm
Bio/Tools/BPlite/Iteration.pm
Bio/Tools/BPlite/Sbjct.pm
Bio/Tools/BPpsilite.pm
Bio/Tools/Blast.pm
Bio/Tools/Blast/CHANGES
Bio/Tools/Blast/HSP.pm
Bio/Tools/Blast/HTML.pm
Bio/Tools/Blast/README
Bio/Tools/Blast/Sbjct.pm
Bio/Tools/CodonTable.pm
Bio/Tools/Coil.pm
Bio/Tools/ECnumber.pm
Bio/Tools/EPCR.pm
Bio/Tools/ESTScan.pm
Bio/Tools/Eponine.pm
Bio/Tools/Est2Genome.pm
Bio/Tools/FootPrinter.pm
Bio/Tools/GFF.pm
Bio/Tools/Gel.pm
Bio/Tools/Genemark.pm
Bio/Tools/Genewise.pm
Bio/Tools/Genomewise.pm
Bio/Tools/Genscan.pm
Bio/Tools/Grail.pm
Bio/Tools/HMMER/Domain.pm
Bio/Tools/HMMER/Results.pm
Bio/Tools/HMMER/Set.pm
Bio/Tools/Hmmpfam.pm
Bio/Tools/IUPAC.pm
Bio/Tools/Lucy.pm
Bio/Tools/MZEF.pm
Bio/Tools/OddCodes.pm
Bio/Tools/Phylo/Molphy.pm
Bio/Tools/Phylo/Molphy/Result.pm
Bio/Tools/Phylo/PAML.pm
Bio/Tools/Phylo/PAML/Result.pm
Bio/Tools/Phylo/Phylip/ProtDist.pm
Bio/Tools/Prediction/Exon.pm
Bio/Tools/Prediction/Gene.pm
Bio/Tools/Primer3.pm
Bio/Tools/Prints.pm
Bio/Tools/Profile.pm
Bio/Tools/Promoterwise.pm
Bio/Tools/Pseudowise.pm
Bio/Tools/RepeatMasker.pm
Bio/Tools/RestrictionEnzyme.pm
Bio/Tools/Run/README
Bio/Tools/Run/RemoteBlast.pm
Bio/Tools/Run/StandAloneBlast.pm
Bio/Tools/Run/WrapperBase.pm
Bio/Tools/Seg.pm
Bio/Tools/SeqAnal.pm
Bio/Tools/SeqPattern.pm
Bio/Tools/SeqStats.pm
Bio/Tools/SeqWords.pm
Bio/Tools/Sigcleave.pm
Bio/Tools/Signalp.pm
Bio/Tools/Sim4/Exon.pm
Bio/Tools/Sim4/Results.pm
Bio/Tools/StateMachine/AbstractStateMachine.pm
Bio/Tools/StateMachine/IOStateMachine.pm
Bio/Tools/Tmhmm.pm
Bio/Tools/WWW.pm
Bio/Tools/pSW.pm
Bio/Tree/AlleleNode.pm
Bio/Tree/Node.pm
Bio/Tree/NodeI.pm
Bio/Tree/NodeNHX.pm
Bio/Tree/RandomFactory.pm
Bio/Tree/Statistics.pm
Bio/Tree/Tree.pm
Bio/Tree/TreeFunctionsI.pm
Bio/Tree/TreeI.pm
Bio/TreeIO.pm
Bio/TreeIO/TreeEventBuilder.pm
Bio/TreeIO/newick.pm
Bio/TreeIO/nhx.pm
Bio/TreeIO/tabtree.pm
Bio/UpdateableSeqI.pm
Bio/Variation/AAChange.pm
Bio/Variation/AAReverseMutate.pm
Bio/Variation/Allele.pm
Bio/Variation/DNAMutation.pm
Bio/Variation/IO.pm
Bio/Variation/IO/flat.pm
Bio/Variation/IO/xml.pm
Bio/Variation/README
Bio/Variation/RNAChange.pm
Bio/Variation/SNP.pm
Bio/Variation/SeqDiff.pm
Bio/Variation/VariantI.pm
Changes
DEPRECATED
FAQ
INSTALL
INSTALL.WIN
LICENSE
LocalConfig.pm
MANIFEST			This list of files
PLATFORMS
README
biodatabases.PL
biodesign.PL
bioperl.PL
bioperl.conf
bioscripts.PL
bptutorial.pl
doc/faq/faq.dtd
doc/faq/faq.pl
doc/faq/faq.xml
doc/howto/Graphics-HOWTO.txt
doc/howto/PAML.txt
doc/howto/SearchIO.txt
doc/howto/examples/README
doc/howto/examples/graphics/blastn.out
doc/howto/examples/graphics/data1.txt
doc/howto/examples/graphics/embl2picture.pl
doc/howto/examples/graphics/factor7.embl
doc/howto/examples/graphics/render_blast1.pl
doc/howto/examples/graphics/render_blast2.pl
doc/howto/examples/graphics/render_blast3.pl
doc/howto/examples/graphics/render_blast4.pl
doc/howto/examples/graphics/render_features.pl
doc/howto/figs/README
doc/howto/figs/graphics/fig1.png
doc/howto/figs/graphics/fig2.png
doc/howto/figs/graphics/fig3.png
doc/howto/figs/graphics/fig4.png
doc/howto/figs/graphics/fig5.png
doc/howto/figs/graphics/fig6.png
doc/howto/html/README
doc/howto/pdf/Graphics-HOWTO.pdf
doc/howto/pdf/SearchIO.pdf
doc/howto/sgml/Graphics-HOWTO.sgml
doc/howto/sgml/PAML.sgml
doc/howto/sgml/README
doc/howto/sgml/SearchIO.sgml
doc/howto/sgml/SequenceFiles.sgml
examples/biographics/dynamic_glyphs.pl
examples/biographics/feature_data.gff
examples/biographics/feature_data.txt
examples/biographics/lots_of_glyphs.pl
examples/ontology/simpleGOparser_example.pl
examples/searchio/waba2gff.pl
models/README
models/biblio.dia
models/bio_liveseq_variation.dia
models/bio_map.dia
models/bioperl.dia
models/map_proposal.txt
models/maps_and_markers.dia
models/population_proposal.txt
scripts/Bio-DB-GFF/README
scripts/Bio-DB-GFF/bulk_load_gff.pl
scripts/Bio-DB-GFF/fast_load_gff.pl
scripts/Bio-DB-GFF/generate_histogram.pl
scripts/Bio-DB-GFF/load_gff.pl
scripts/Bio-DB-GFF/process_gadfly.pl
scripts/Bio-DB-GFF/process_ncbi_human.pl
scripts/Bio-DB-GFF/process_sgd.pl
scripts/Bio-DB-GFF/process_wormbase.pl
scripts/Bio-DB-GFF/ucsc2gff.pl
scripts/DB/blast_fetch.pl
scripts/DB/blast_fetch_local.pl
scripts/DB/dbfetch.pl
scripts/DB/est_tissue_query.pl
scripts/DB/flanks.PLS
scripts/DB/gb2features.pl
scripts/DB/getGenBank.pl
scripts/DB/get_seqs.pl
scripts/DB/rfetch.pl
scripts/DB/use_registry.pl
scripts/align/align_on_codons.pl
scripts/align/aligntutorial.pl
scripts/align/blosum62.bla
scripts/align/clustalw.pl
scripts/align/simplealign.pl
scripts/biblio/biblio.pl
scripts/biblio/biblio_soap.pl
scripts/biographics/README
scripts/biographics/frend
scripts/biographics/render_sequence.pl
scripts/bioperl.pl
scripts/cluster/dbsnp.pl
scripts/contributed/nmrpdb_parse.pl
scripts/contributed/prosite2perl.pl
scripts/das/README
scripts/exceptions/Error-0.13.tar.gz
scripts/exceptions/Error.pm
scripts/exceptions/README
scripts/exceptions/TestInterface.pm
scripts/exceptions/TestObject.pm
scripts/exceptions/test1.pl
scripts/exceptions/test2.pl
scripts/exceptions/test3.pl
scripts/exceptions/test4.pl
scripts/generate_random_seq.pl
scripts/graphics/feature_draw.pl
scripts/graphics/render_sequence.pl
scripts/index/bpfetch.pl
scripts/index/bpindex.pl
scripts/liveseq/change_gene.pl
scripts/longorf.pl
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