@comment $OpenBSD: PLIST,v 1.3 2010/12/16 12:05:04 jasper Exp $
bin/bp_aacomp.pl
bin/bp_biblio.pl
bin/bp_biofetch_genbank_proxy.pl
bin/bp_bioflat_index.pl
bin/bp_biogetseq.pl
bin/bp_blast2tree.pl
bin/bp_bulk_load_gff.pl
bin/bp_chaos_plot.pl
bin/bp_classify_hits_kingdom.pl
bin/bp_composite_LD.pl
bin/bp_dbsplit.pl
bin/bp_download_query_genbank.pl
bin/bp_einfo.pl
bin/bp_extract_feature_seq.pl
bin/bp_fast_load_gff.pl
bin/bp_fastam9_to_table.pl
bin/bp_fetch.pl
bin/bp_filter_search.pl
bin/bp_flanks.pl
bin/bp_gccalc.pl
bin/bp_genbank2gff.pl
bin/bp_genbank2gff3.pl
bin/bp_generate_histogram.pl
bin/bp_heterogeneity_test.pl
bin/bp_hivq.pl
bin/bp_hmmer_to_table.pl
bin/bp_index.pl
bin/bp_load_gff.pl
bin/bp_local_taxonomydb_query.pl
bin/bp_make_mrna_protein.pl
bin/bp_mask_by_search.pl
bin/bp_meta_gff.pl
bin/bp_mrtrans.pl
bin/bp_mutate.pl
bin/bp_nexus2nh.pl
bin/bp_nrdb.pl
bin/bp_oligo_count.pl
bin/bp_pairwise_kaks.pl
bin/bp_parse_hmmsearch.pl
bin/bp_process_gadfly.pl
bin/bp_process_sgd.pl
bin/bp_process_wormbase.pl
bin/bp_query_entrez_taxa.pl
bin/bp_remote_blast.pl
bin/bp_revtrans-motif.pl
bin/bp_search2BSML.pl
bin/bp_search2alnblocks.pl
bin/bp_search2gff.pl
bin/bp_search2table.pl
bin/bp_search2tribe.pl
bin/bp_seq_length.pl
bin/bp_seqconvert.pl
bin/bp_seqfeature_delete.pl
bin/bp_seqfeature_gff3.pl
bin/bp_seqfeature_load.pl
bin/bp_seqret.pl
bin/bp_seqretsplit.pl
bin/bp_split_seq.pl
bin/bp_sreformat.pl
bin/bp_taxid4species.pl
bin/bp_taxonomy2tree.pl
bin/bp_translate_seq.pl
bin/bp_tree2pag.pl
bin/bp_unflatten_seq.pl
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@man man/man3p/Bio::LiveSeq::Translation.3p
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@man man/man3p/Bio::Map::LinkageMap.3p
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@man man/man3p/Bio::Map::Mappable.3p
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@man man/man3p/Bio::Map::MarkerI.3p
@man man/man3p/Bio::Map::Microsatellite.3p
@man man/man3p/Bio::Map::OrderedPosition.3p
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@man man/man3p/Bio::SeqIO::MultiFile.3p
@man man/man3p/Bio::SeqIO::abi.3p
@man man/man3p/Bio::SeqIO::ace.3p
@man man/man3p/Bio::SeqIO::agave.3p
@man man/man3p/Bio::SeqIO::alf.3p
@man man/man3p/Bio::SeqIO::asciitree.3p
@man man/man3p/Bio::SeqIO::bsml.3p
@man man/man3p/Bio::SeqIO::bsml_sax.3p
@man man/man3p/Bio::SeqIO::chadoxml.3p
@man man/man3p/Bio::SeqIO::chaos.3p
@man man/man3p/Bio::SeqIO::chaosxml.3p
@man man/man3p/Bio::SeqIO::ctf.3p
@man man/man3p/Bio::SeqIO::embl.3p
@man man/man3p/Bio::SeqIO::embldriver.3p
@man man/man3p/Bio::SeqIO::entrezgene.3p
@man man/man3p/Bio::SeqIO::excel.3p
@man man/man3p/Bio::SeqIO::exp.3p
@man man/man3p/Bio::SeqIO::fasta.3p
@man man/man3p/Bio::SeqIO::fastq.3p
@man man/man3p/Bio::SeqIO::flybase_chadoxml.3p
@man man/man3p/Bio::SeqIO::game.3p
@man man/man3p/Bio::SeqIO::game::featHandler.3p
@man man/man3p/Bio::SeqIO::game::gameHandler.3p
@man man/man3p/Bio::SeqIO::game::gameSubs.3p
@man man/man3p/Bio::SeqIO::game::gameWriter.3p
@man man/man3p/Bio::SeqIO::game::seqHandler.3p
@man man/man3p/Bio::SeqIO::gbdriver.3p
@man man/man3p/Bio::SeqIO::gcg.3p
@man man/man3p/Bio::SeqIO::genbank.3p
@man man/man3p/Bio::SeqIO::interpro.3p
@man man/man3p/Bio::SeqIO::kegg.3p
@man man/man3p/Bio::SeqIO::largefasta.3p
@man man/man3p/Bio::SeqIO::lasergene.3p
@man man/man3p/Bio::SeqIO::locuslink.3p
@man man/man3p/Bio::SeqIO::metafasta.3p
@man man/man3p/Bio::SeqIO::phd.3p
@man man/man3p/Bio::SeqIO::pir.3p
@man man/man3p/Bio::SeqIO::pln.3p
@man man/man3p/Bio::SeqIO::qual.3p
@man man/man3p/Bio::SeqIO::raw.3p
@man man/man3p/Bio::SeqIO::scf.3p
@man man/man3p/Bio::SeqIO::strider.3p
@man man/man3p/Bio::SeqIO::swiss.3p
@man man/man3p/Bio::SeqIO::swissdriver.3p
@man man/man3p/Bio::SeqIO::tab.3p
@man man/man3p/Bio::SeqIO::table.3p
@man man/man3p/Bio::SeqIO::tigr.3p
@man man/man3p/Bio::SeqIO::tigrxml.3p
@man man/man3p/Bio::SeqIO::tinyseq.3p
@man man/man3p/Bio::SeqIO::tinyseq::tinyseqHandler.3p
@man man/man3p/Bio::SeqIO::ztr.3p
@man man/man3p/Bio::SeqUtils.3p
@man man/man3p/Bio::SimpleAlign.3p
@man man/man3p/Bio::SimpleAnalysisI.3p
@man man/man3p/Bio::Species.3p
@man man/man3p/Bio::Structure::Atom.3p
@man man/man3p/Bio::Structure::Chain.3p
@man man/man3p/Bio::Structure::Entry.3p
@man man/man3p/Bio::Structure::IO.3p
@man man/man3p/Bio::Structure::IO::pdb.3p
@man man/man3p/Bio::Structure::Model.3p
@man man/man3p/Bio::Structure::Residue.3p
@man man/man3p/Bio::Structure::SecStr::DSSP::Res.3p
@man man/man3p/Bio::Structure::SecStr::STRIDE::Res.3p
@man man/man3p/Bio::Structure::StructureI.3p
@man man/man3p/Bio::Symbol::Alphabet.3p
@man man/man3p/Bio::Symbol::AlphabetI.3p
@man man/man3p/Bio::Symbol::DNAAlphabet.3p
@man man/man3p/Bio::Symbol::ProteinAlphabet.3p
@man man/man3p/Bio::Symbol::Symbol.3p
@man man/man3p/Bio::Symbol::SymbolI.3p
@man man/man3p/Bio::Taxon.3p
@man man/man3p/Bio::Taxonomy.3p
@man man/man3p/Bio::Taxonomy::FactoryI.3p
@man man/man3p/Bio::Taxonomy::Node.3p
@man man/man3p/Bio::Taxonomy::Taxon.3p
@man man/man3p/Bio::Taxonomy::Tree.3p
@man man/man3p/Bio::Tools::AlignFactory.3p
@man man/man3p/Bio::Tools::Alignment::Consed.3p
@man man/man3p/Bio::Tools::Alignment::Trim.3p
@man man/man3p/Bio::Tools::Analysis::DNA::ESEfinder.3p
@man man/man3p/Bio::Tools::Analysis::Protein::Domcut.3p
@man man/man3p/Bio::Tools::Analysis::Protein::ELM.3p
@man man/man3p/Bio::Tools::Analysis::Protein::GOR4.3p
@man man/man3p/Bio::Tools::Analysis::Protein::HNN.3p
@man man/man3p/Bio::Tools::Analysis::Protein::Mitoprot.3p
@man man/man3p/Bio::Tools::Analysis::Protein::NetPhos.3p
@man man/man3p/Bio::Tools::Analysis::Protein::Scansite.3p
@man man/man3p/Bio::Tools::Analysis::Protein::Sopma.3p
@man man/man3p/Bio::Tools::Analysis::SimpleAnalysisBase.3p
@man man/man3p/Bio::Tools::AnalysisResult.3p
@man man/man3p/Bio::Tools::Blat.3p
@man man/man3p/Bio::Tools::CodonTable.3p
@man man/man3p/Bio::Tools::Coil.3p
@man man/man3p/Bio::Tools::ECnumber.3p
@man man/man3p/Bio::Tools::EMBOSS::Palindrome.3p
@man man/man3p/Bio::Tools::EPCR.3p
@man man/man3p/Bio::Tools::ERPIN.3p
@man man/man3p/Bio::Tools::ESTScan.3p
@man man/man3p/Bio::Tools::EUtilities.3p
@man man/man3p/Bio::Tools::EUtilities::Cookie.3p
@man man/man3p/Bio::Tools::EUtilities::EUtilDataI.3p
@man man/man3p/Bio::Tools::EUtilities::EUtilParameters.3p
@man man/man3p/Bio::Tools::EUtilities::History.3p
@man man/man3p/Bio::Tools::EUtilities::HistoryI.3p
@man man/man3p/Bio::Tools::EUtilities::Info.3p
@man man/man3p/Bio::Tools::EUtilities::Info::FieldInfo.3p
@man man/man3p/Bio::Tools::EUtilities::Info::LinkInfo.3p
@man man/man3p/Bio::Tools::EUtilities::Link.3p
@man man/man3p/Bio::Tools::EUtilities::Link::LinkSet.3p
@man man/man3p/Bio::Tools::EUtilities::Link::UrlLink.3p
@man man/man3p/Bio::Tools::EUtilities::Query.3p
@man man/man3p/Bio::Tools::EUtilities::Query::GlobalQuery.3p
@man man/man3p/Bio::Tools::EUtilities::Summary.3p
@man man/man3p/Bio::Tools::EUtilities::Summary::DocSum.3p
@man man/man3p/Bio::Tools::EUtilities::Summary::Item.3p
@man man/man3p/Bio::Tools::EUtilities::Summary::ItemContainerI.3p
@man man/man3p/Bio::Tools::Eponine.3p
@man man/man3p/Bio::Tools::Est2Genome.3p
@man man/man3p/Bio::Tools::Fgenesh.3p
@man man/man3p/Bio::Tools::FootPrinter.3p
@man man/man3p/Bio::Tools::GFF.3p
@man man/man3p/Bio::Tools::Gel.3p
@man man/man3p/Bio::Tools::Geneid.3p
@man man/man3p/Bio::Tools::Genemark.3p
@man man/man3p/Bio::Tools::Genewise.3p
@man man/man3p/Bio::Tools::Genomewise.3p
@man man/man3p/Bio::Tools::Genscan.3p
@man man/man3p/Bio::Tools::Glimmer.3p
@man man/man3p/Bio::Tools::Grail.3p
@man man/man3p/Bio::Tools::GuessSeqFormat.3p
@man man/man3p/Bio::Tools::HMMER::Domain.3p
@man man/man3p/Bio::Tools::HMMER::Results.3p
@man man/man3p/Bio::Tools::HMMER::Set.3p
@man man/man3p/Bio::Tools::Hmmpfam.3p
@man man/man3p/Bio::Tools::IUPAC.3p
@man man/man3p/Bio::Tools::Infernal.3p
@man man/man3p/Bio::Tools::Lucy.3p
@man man/man3p/Bio::Tools::MZEF.3p
@man man/man3p/Bio::Tools::Match.3p
@man man/man3p/Bio::Tools::OddCodes.3p
@man man/man3p/Bio::Tools::Phylo::Gerp.3p
@man man/man3p/Bio::Tools::Phylo::Gumby.3p
@man man/man3p/Bio::Tools::Phylo::Molphy.3p
@man man/man3p/Bio::Tools::Phylo::Molphy::Result.3p
@man man/man3p/Bio::Tools::Phylo::PAML.3p
@man man/man3p/Bio::Tools::Phylo::PAML::ModelResult.3p
@man man/man3p/Bio::Tools::Phylo::PAML::Result.3p
@man man/man3p/Bio::Tools::Phylo::Phylip::ProtDist.3p
@man man/man3p/Bio::Tools::Prediction::Exon.3p
@man man/man3p/Bio::Tools::Prediction::Gene.3p
@man man/man3p/Bio::Tools::Primer3.3p
@man man/man3p/Bio::Tools::Primer::Assessor::Base.3p
@man man/man3p/Bio::Tools::Primer::AssessorI.3p
@man man/man3p/Bio::Tools::Primer::Feature.3p
@man man/man3p/Bio::Tools::Primer::Pair.3p
@man man/man3p/Bio::Tools::Prints.3p
@man man/man3p/Bio::Tools::Profile.3p
@man man/man3p/Bio::Tools::Promoterwise.3p
@man man/man3p/Bio::Tools::PrositeScan.3p
@man man/man3p/Bio::Tools::Protparam.3p
@man man/man3p/Bio::Tools::Pseudowise.3p
@man man/man3p/Bio::Tools::QRNA.3p
@man man/man3p/Bio::Tools::RNAMotif.3p
@man man/man3p/Bio::Tools::RandomDistFunctions.3p
@man man/man3p/Bio::Tools::RepeatMasker.3p
@man man/man3p/Bio::Tools::Run::GenericParameters.3p
@man man/man3p/Bio::Tools::Run::ParametersI.3p
@man man/man3p/Bio::Tools::Run::RemoteBlast.3p
@man man/man3p/Bio::Tools::Run::StandAloneBlast.3p
@man man/man3p/Bio::Tools::Run::StandAloneNCBIBlast.3p
@man man/man3p/Bio::Tools::Run::StandAloneWUBlast.3p
@man man/man3p/Bio::Tools::Run::WrapperBase.3p
@man man/man3p/Bio::Tools::Seg.3p
@man man/man3p/Bio::Tools::SeqPattern.3p
@man man/man3p/Bio::Tools::SeqPattern::Backtranslate.3p
@man man/man3p/Bio::Tools::SeqStats.3p
@man man/man3p/Bio::Tools::SeqWords.3p
@man man/man3p/Bio::Tools::SiRNA.3p
@man man/man3p/Bio::Tools::SiRNA::Ruleset::saigo.3p
@man man/man3p/Bio::Tools::SiRNA::Ruleset::tuschl.3p
@man man/man3p/Bio::Tools::Sigcleave.3p
@man man/man3p/Bio::Tools::Signalp.3p
@man man/man3p/Bio::Tools::Signalp::ExtendedSignalp.3p
@man man/man3p/Bio::Tools::Sim4::Exon.3p
@man man/man3p/Bio::Tools::Sim4::Results.3p
@man man/man3p/Bio::Tools::Spidey::Exon.3p
@man man/man3p/Bio::Tools::Spidey::Results.3p
@man man/man3p/Bio::Tools::TandemRepeatsFinder.3p
@man man/man3p/Bio::Tools::TargetP.3p
@man man/man3p/Bio::Tools::Tmhmm.3p
@man man/man3p/Bio::Tools::dpAlign.3p
@man man/man3p/Bio::Tools::ipcress.3p
@man man/man3p/Bio::Tools::isPcr.3p
@man man/man3p/Bio::Tools::pICalculator.3p
@man man/man3p/Bio::Tools::pSW.3p
@man man/man3p/Bio::Tools::tRNAscanSE.3p
@man man/man3p/Bio::Tree::AlleleNode.3p
@man man/man3p/Bio::Tree::AnnotatableNode.3p
@man man/man3p/Bio::Tree::Compatible.3p
@man man/man3p/Bio::Tree::DistanceFactory.3p
@man man/man3p/Bio::Tree::Draw::Cladogram.3p
@man man/man3p/Bio::Tree::Node.3p
@man man/man3p/Bio::Tree::NodeI.3p
@man man/man3p/Bio::Tree::NodeNHX.3p
@man man/man3p/Bio::Tree::RandomFactory.3p
@man man/man3p/Bio::Tree::Statistics.3p
@man man/man3p/Bio::Tree::Tree.3p
@man man/man3p/Bio::Tree::TreeFunctionsI.3p
@man man/man3p/Bio::Tree::TreeI.3p
@man man/man3p/Bio::TreeIO.3p
@man man/man3p/Bio::TreeIO::TreeEventBuilder.3p
@man man/man3p/Bio::TreeIO::cluster.3p
@man man/man3p/Bio::TreeIO::lintree.3p
@man man/man3p/Bio::TreeIO::newick.3p
@man man/man3p/Bio::TreeIO::nexus.3p
@man man/man3p/Bio::TreeIO::nhx.3p
@man man/man3p/Bio::TreeIO::pag.3p
@man man/man3p/Bio::TreeIO::phyloxml.3p
@man man/man3p/Bio::TreeIO::svggraph.3p
@man man/man3p/Bio::TreeIO::tabtree.3p
@man man/man3p/Bio::UpdateableSeqI.3p
@man man/man3p/Bio::Variation::AAChange.3p
@man man/man3p/Bio::Variation::AAReverseMutate.3p
@man man/man3p/Bio::Variation::Allele.3p
@man man/man3p/Bio::Variation::DNAMutation.3p
@man man/man3p/Bio::Variation::IO.3p
@man man/man3p/Bio::Variation::IO::flat.3p
@man man/man3p/Bio::Variation::IO::xml.3p
@man man/man3p/Bio::Variation::RNAChange.3p
@man man/man3p/Bio::Variation::SNP.3p
@man man/man3p/Bio::Variation::SeqDiff.3p
@man man/man3p/Bio::Variation::VariantI.3p
@man man/man3p/Bio::WebAgent.3p
share/examples/bioperl/
share/examples/bioperl/Bio-DB-GFF/
share/examples/bioperl/Bio-DB-GFF/load_ucsc.pl
share/examples/bioperl/align/
share/examples/bioperl/align/align_on_codons.pl
share/examples/bioperl/align/aligntutorial.pl
share/examples/bioperl/align/clustalw.pl
share/examples/bioperl/align/simplealign.pl
share/examples/bioperl/biblio/
share/examples/bioperl/biblio/biblio-eutils-example.pl
share/examples/bioperl/biblio/biblio-soap-example.pl
share/examples/bioperl/biblio/biblio_soap.pl
share/examples/bioperl/bioperl.pl
share/examples/bioperl/cluster/
share/examples/bioperl/cluster/dbsnp.pl
share/examples/bioperl/contributed/
share/examples/bioperl/contributed/nmrpdb_parse.pl
share/examples/bioperl/contributed/prosite2perl.pl
share/examples/bioperl/contributed/rebase2list.pl
share/examples/bioperl/db/
share/examples/bioperl/db/dbfetch
share/examples/bioperl/db/est_tissue_query.pl
share/examples/bioperl/db/gb2features.pl
share/examples/bioperl/db/getGenBank.pl
share/examples/bioperl/db/get_seqs.pl
share/examples/bioperl/db/rfetch.pl
share/examples/bioperl/db/use_registry.pl
share/examples/bioperl/generate_random_seq.pl
share/examples/bioperl/liveseq/
share/examples/bioperl/liveseq/change_gene.pl
share/examples/bioperl/longorf.pl
share/examples/bioperl/make_primers.pl
share/examples/bioperl/popgen/
share/examples/bioperl/popgen/parse_calc_stats.pl
share/examples/bioperl/quality/
share/examples/bioperl/quality/svgtrace.pl
share/examples/bioperl/rev_and_trans.pl
share/examples/bioperl/revcom_dir.pl
share/examples/bioperl/root/
share/examples/bioperl/root/README
share/examples/bioperl/root/exceptions1.pl
share/examples/bioperl/root/exceptions2.pl
share/examples/bioperl/root/exceptions3.pl
share/examples/bioperl/root/exceptions4.pl
share/examples/bioperl/root/lib/
share/examples/bioperl/root/lib/Bio/
share/examples/bioperl/root/lib/Bio/PrimarySeq.pm
share/examples/bioperl/root/lib/Bio/PrimarySeqI.pm
share/examples/bioperl/root/lib/Bio/Seq.pm
share/examples/bioperl/root/lib/Bio/SeqI.pm
share/examples/bioperl/root/lib/TestInterface.pm
share/examples/bioperl/root/lib/TestObject.pm
share/examples/bioperl/searchio/
share/examples/bioperl/searchio/blast_example.pl
share/examples/bioperl/searchio/custom_writer.pl
share/examples/bioperl/searchio/hitwriter.pl
share/examples/bioperl/searchio/hspwriter.pl
share/examples/bioperl/searchio/htmlwriter.pl
share/examples/bioperl/searchio/psiblast_features.pl
share/examples/bioperl/searchio/psiblast_iterations.pl
share/examples/bioperl/searchio/rawwriter.pl
share/examples/bioperl/searchio/resultwriter.pl
share/examples/bioperl/searchio/waba2gff.pl
share/examples/bioperl/searchio/waba2gff3.pl
share/examples/bioperl/sirna/
share/examples/bioperl/sirna/TAG
share/examples/bioperl/sirna/rnai_finder.cgi
share/examples/bioperl/structure/
share/examples/bioperl/structure/structure-io.pl
share/examples/bioperl/subsequence.cgi
share/examples/bioperl/tk/
share/examples/bioperl/tk/gsequence.pl
share/examples/bioperl/tk/hitdisplay.pl
share/examples/bioperl/tools/
share/examples/bioperl/tools/extract_genes.pl
share/examples/bioperl/tools/gb_to_gff.pl
share/examples/bioperl/tools/gff2ps.pl
share/examples/bioperl/tools/parse_codeml.pl
share/examples/bioperl/tools/psw.pl
share/examples/bioperl/tools/reverse-translate.pl
share/examples/bioperl/tools/run_genscan.pl
share/examples/bioperl/tools/run_primer3.pl
share/examples/bioperl/tools/seq_pattern.pl
share/examples/bioperl/tools/standaloneblast.pl
share/examples/bioperl/tree/
share/examples/bioperl/tree/paup2phylip.pl