Coverage Summary

Module BioPerl
Version 1.007002
Database: /root/.cpan/build/BioPerl-1.007002-0/cover_db
Report date: 2017-09-11 23:32:45
Perl version: v5.26.0
OS: linux
Thresholds: < 75% < 90% < 100% = 100%

Restrict to regex:

file stmt bran cond sub pod time total
Total 72.6 57.7 47.6 74.6 90.3 100.0 67.7
Bio/Align/AlignI.pm 7.5 n/a n/a 5.0 100.0 0.0 29.1
Bio/Align/DNAStatistics.pm 81.1 61.8 48.0 86.6 66.6 0.3 75.8
Bio/Align/PairwiseStatistics.pm 85.1 68.4 52.6 100.0 100.0 0.0 74.6
Bio/Align/ProteinStatistics.pm 85.3 62.5 40.4 91.6 100.0 0.1 70.5
Bio/Align/StatisticsI.pm 60.0 n/a n/a 50.0 100.0 0.0 62.5
Bio/Align/Utilities.pm 62.5 38.4 36.0 83.3 100.0 0.0 57.4
Bio/AlignIO.pm 90.1 70.0 44.0 90.0 100.0 0.0 79.3
Bio/AlignIO/Handler/GenericAlignHandler.pm 87.6 55.8 52.6 90.6 100.0 0.0 75.7
Bio/AlignIO/arp.pm 94.5 75.0 33.3 87.5 100.0 0.0 86.9
Bio/AlignIO/bl2seq.pm 82.8 61.1 n/a 85.7 100.0 0.0 77.7
Bio/AlignIO/clustalw.pm 88.8 70.3 44.4 100.0 100.0 0.0 80.6
Bio/AlignIO/emboss.pm 95.4 93.1 88.4 87.5 100.0 0.0 93.4
Bio/AlignIO/fasta.pm 94.1 70.0 40.0 100.0 100.0 0.0 82.0
Bio/AlignIO/largemultifasta.pm 90.1 61.5 50.0 100.0 100.0 0.0 80.3
Bio/AlignIO/maf.pm 95.6 83.3 n/a 83.3 100.0 0.0 91.0
Bio/AlignIO/mase.pm 83.3 66.6 n/a 75.0 100.0 0.0 80.0
Bio/AlignIO/mega.pm 94.4 76.9 33.3 100.0 100.0 0.0 87.4
Bio/AlignIO/meme.pm 88.2 75.0 77.7 83.3 100.0 0.0 83.3
Bio/AlignIO/metafasta.pm 86.0 46.6 33.3 100.0 100.0 0.0 75.7
Bio/AlignIO/msf.pm 89.8 71.4 55.5 100.0 100.0 0.0 84.8
Bio/AlignIO/nexus.pm 91.4 76.9 60.9 90.0 100.0 0.0 83.0
Bio/AlignIO/pfam.pm 87.7 50.0 33.3 100.0 100.0 0.0 77.6
Bio/AlignIO/phylip.pm 83.6 63.2 45.4 94.1 100.0 0.0 75.5
Bio/AlignIO/po.pm 96.1 78.0 35.2 100.0 100.0 0.0 87.7
Bio/AlignIO/prodom.pm 88.4 87.5 n/a 75.0 100.0 0.0 87.5
Bio/AlignIO/psi.pm 94.3 78.5 33.3 100.0 100.0 0.0 84.0
Bio/AlignIO/selex.pm 83.7 62.5 33.3 100.0 100.0 0.0 77.9
Bio/AlignIO/stockholm.pm 84.8 66.9 84.0 100.0 100.0 0.0 79.3
Bio/AlignIO/xmfa.pm 86.8 67.5 39.2 85.7 100.0 0.0 73.3
Bio/AnalysisParserI.pm 75.0 n/a n/a 66.6 100.0 0.0 75.0
Bio/AnalysisResultI.pm 30.0 n/a n/a 22.2 100.0 0.0 41.6
Bio/AnnotatableI.pm 85.7 n/a n/a 66.6 100.0 0.0 81.8
Bio/Annotation/AnnotationFactory.pm 84.0 72.2 100.0 100.0 100.0 0.0 82.0
Bio/Annotation/Collection.pm 46.5 43.5 44.4 51.8 100.0 0.2 50.3
Bio/Annotation/Comment.pm 88.5 85.7 33.3 88.8 100.0 0.0 86.7
Bio/Annotation/DBLink.pm 68.7 64.5 33.3 64.7 100.0 0.1 69.3
Bio/Annotation/OntologyTerm.pm 50.7 55.0 52.9 40.7 100.0 0.0 57.5
Bio/Annotation/Reference.pm 78.5 77.2 25.0 87.5 100.0 0.0 78.3
Bio/Annotation/SimpleValue.pm 75.0 61.1 33.3 77.7 100.0 0.1 72.6
Bio/Annotation/StructuredValue.pm 76.1 66.6 55.5 66.6 100.0 0.0 71.8
Bio/Annotation/TagTree.pm 57.4 64.0 41.1 43.3 100.0 0.0 60.7
Bio/Annotation/Target.pm 80.6 92.8 14.2 85.7 100.0 0.0 71.8
Bio/Annotation/Tree.pm 65.7 71.4 0.0 66.6 100.0 0.0 64.7
Bio/Annotation/TypeManager.pm 92.0 50.0 33.3 100.0 100.0 0.0 76.4
Bio/AnnotationCollectionI.pm 54.5 n/a n/a 28.5 100.0 0.0 56.5
Bio/AnnotationI.pm 60.0 n/a n/a 33.3 100.0 0.0 60.0
Bio/Cluster/ClusterFactory.pm 96.4 70.0 33.3 100.0 100.0 0.0 84.6
Bio/Cluster/FamilyI.pm 75.0 n/a n/a 50.0 100.0 0.0 71.4
Bio/Cluster/SequenceFamily.pm 82.9 58.3 33.3 83.3 100.0 0.0 76.5
Bio/Cluster/UniGene.pm 86.0 73.0 52.6 86.2 100.0 0.0 81.7
Bio/Cluster/UniGeneI.pm 15.3 n/a n/a 10.5 100.0 0.0 33.3
Bio/ClusterI.pm 54.5 n/a n/a 28.5 100.0 0.0 56.5
Bio/ClusterIO.pm 66.0 37.5 25.0 53.8 100.0 0.0 57.1
Bio/ClusterIO/dbsnp.pm 90.4 73.8 80.0 100.0 87.5 0.0 86.3
Bio/ClusterIO/unigene.pm 97.1 90.2 n/a 100.0 100.0 0.0 93.9
Bio/CodonUsage/IO.pm 96.4 86.3 44.4 100.0 100.0 0.0 89.6
Bio/CodonUsage/Table.pm 71.2 47.0 23.4 84.6 100.0 0.0 63.3
Bio/DB/CUTG.pm 18.6 0.0 0.0 46.1 100.0 0.0 19.0
Bio/DB/DBFetch.pm 32.2 13.0 6.6 56.2 100.0 0.0 31.5
Bio/DB/EMBL.pm 69.7 0.0 0.0 75.0 100.0 0.0 57.4
Bio/DB/Failover.pm 10.3 0.0 0.0 28.5 100.0 0.0 13.9
Bio/DB/Fasta.pm 94.9 72.5 71.4 91.6 50.0 0.2 88.0
Bio/DB/Flat.pm 35.2 23.5 0.0 42.8 23.0 0.0 30.8
Bio/DB/Flat/BinarySearch.pm 43.9 30.8 44.7 59.6 80.9 0.0 43.3
Bio/DB/GFF.pm 71.9 54.7 55.5 61.3 84.8 5.5 65.7
Bio/DB/GFF/Adaptor/memory.pm 79.4 61.1 47.1 88.8 76.4 0.1 70.1
Bio/DB/GFF/Adaptor/memory/feature_serializer.pm 37.5 0.0 n/a 60.0 0.0 0.0 36.3
Bio/DB/GFF/Adaptor/memory/iterator.pm 96.7 80.0 n/a 100.0 0.0 0.0 89.3
Bio/DB/GFF/Aggregator.pm 93.5 75.0 44.4 85.7 82.3 0.0 84.0
Bio/DB/GFF/Aggregator/processed_transcript.pm 100.0 n/a n/a 100.0 100.0 0.0 100.0
Bio/DB/GFF/Aggregator/transcript.pm 100.0 n/a n/a 100.0 100.0 0.0 100.0
Bio/DB/GFF/Featname.pm 84.2 n/a n/a 80.0 100.0 0.0 85.7
Bio/DB/GFF/Feature.pm 47.6 29.4 14.6 65.3 94.7 0.0 41.1
Bio/DB/GFF/Homol.pm 44.4 0.0 n/a 66.6 75.0 0.0 50.0
Bio/DB/GFF/RelSegment.pm 64.5 45.4 47.4 67.5 96.6 0.0 58.2
Bio/DB/GFF/Segment.pm 44.0 18.9 28.5 42.5 100.0 0.0 45.0
Bio/DB/GFF/Typename.pm 92.3 57.1 43.4 100.0 100.0 0.0 75.8
Bio/DB/GFF/Util/Rearrange.pm 100.0 100.0 66.6 100.0 100.0 0.0 98.3
Bio/DB/GenBank.pm 76.4 0.0 n/a 83.3 100.0 0.0 74.0
Bio/DB/GenPept.pm 52.1 0.0 n/a 50.0 100.0 0.0 54.0
Bio/DB/InMemoryCache.pm 10.7 0.0 0.0 25.0 57.1 0.0 11.8
Bio/DB/IndexedBase.pm 88.5 66.1 63.1 85.3 100.0 0.4 81.1
Bio/DB/NCBIHelper.pm 34.7 10.0 1.6 51.8 100.0 0.0 26.6
Bio/DB/Qual.pm 92.6 58.0 41.6 100.0 25.0 0.0 80.3
Bio/DB/Query/GenBank.pm 27.2 0.0 0.0 45.4 33.3 0.0 23.5
Bio/DB/Query/WebQuery.pm 16.3 0.0 0.0 27.7 100.0 0.0 14.5
Bio/DB/QueryI.pm 46.1 n/a n/a 40.0 100.0 0.0 52.3
Bio/DB/RandomAccessI.pm 60.0 n/a n/a 50.0 100.0 0.0 62.5
Bio/DB/RefSeq.pm 42.8 0.0 n/a 66.6 100.0 0.0 45.0
Bio/DB/Registry.pm 17.9 3.7 9.0 50.0 100.0 0.0 16.6
Bio/DB/SeqI.pm 50.0 n/a n/a 40.0 100.0 0.0 55.0
Bio/DB/SeqVersion.pm 77.4 66.6 33.3 57.1 100.0 0.0 72.5
Bio/DB/SeqVersion/gi.pm 27.5 0.0 0.0 45.4 100.0 0.0 27.9
Bio/DB/SwissProt.pm 8.2 0.0 0.0 21.4 100.0 0.0 10.8
Bio/DB/Taxonomy.pm 72.6 59.0 66.6 60.0 100.0 0.1 69.9
Bio/DB/Taxonomy/greengenes.pm 100.0 87.5 100.0 100.0 100.0 0.0 97.8
Bio/DB/Taxonomy/list.pm 80.4 65.6 47.3 90.0 100.0 0.1 72.6
Bio/DB/Taxonomy/silva.pm 100.0 80.0 n/a 100.0 100.0 0.0 95.7
Bio/DB/WebDBSeqI.pm 31.5 13.0 4.2 52.1 92.3 0.0 28.1
Bio/DBLinkContainerI.pm 75.0 n/a 0.0 75.0 100.0 0.0 65.0
Bio/Das/FeatureTypeI.pm 28.1 0.0 n/a 18.7 100.0 0.0 37.3
Bio/Das/SegmentI.pm 18.1 0.0 0.0 9.5 84.2 0.0 28.5
Bio/DasI.pm 58.6 100.0 83.3 25.0 92.3 0.0 62.8
Bio/DescribableI.pm 60.0 n/a n/a 50.0 100.0 0.0 62.5
Bio/Draw/Pictogram.pm 96.4 85.0 81.0 100.0 90.0 0.0 92.6
Bio/Event/EventGeneratorI.pm 75.0 n/a n/a 66.6 100.0 0.0 75.0
Bio/Event/EventHandlerI.pm 36.0 n/a n/a 27.2 100.0 0.0 45.4
Bio/Factory/DriverFactory.pm 94.5 50.0 n/a 100.0 100.0 0.0 91.2
Bio/Factory/FTLocationFactory.pm 99.1 95.3 90.9 100.0 100.0 1.2 96.6
Bio/Factory/LocationFactoryI.pm 81.8 n/a n/a 75.0 100.0 0.0 81.2
Bio/Factory/MapFactoryI.pm 60.0 n/a n/a 50.0 100.0 0.0 62.5
Bio/Factory/ObjectBuilderI.pm 69.2 n/a n/a 42.8 100.0 0.0 66.6
Bio/Factory/ObjectFactory.pm 92.3 78.5 80.0 100.0 100.0 0.1 89.8
Bio/Factory/ObjectFactoryI.pm 84.6 n/a n/a 80.0 100.0 0.0 85.0
Bio/Factory/SeqAnalysisParserFactory.pm 88.4 50.0 n/a 100.0 100.0 0.0 82.9
Bio/Factory/SeqAnalysisParserFactoryI.pm 81.8 n/a n/a 75.0 100.0 0.0 81.2
Bio/Factory/SequenceFactoryI.pm 100.0 n/a n/a 100.0 n/a 0.0 100.0
Bio/Factory/SequenceStreamI.pm 66.6 n/a n/a 40.0 100.0 0.0 64.7
Bio/Factory/TreeFactoryI.pm 60.0 n/a n/a 50.0 100.0 0.0 62.5
Bio/FeatureHolderI.pm 68.4 50.0 n/a 45.4 71.4 0.0 62.9
Bio/HandlerBaseI.pm 60.0 n/a n/a 33.3 100.0 0.0 60.0
Bio/IdentifiableI.pm 55.5 50.0 n/a 50.0 100.0 0.0 61.7
Bio/Index/Abstract.pm 71.0 43.5 50.0 80.0 100.0 0.0 63.9
Bio/Index/Blast.pm 92.7 61.1 50.0 100.0 100.0 0.0 86.0
Bio/Index/BlastTable.pm 94.0 81.2 75.0 90.0 100.0 0.0 90.4
Bio/LiveSeq/AARange.pm 4.4 0.0 0.0 9.5 100.0 0.0 11.3
Bio/LiveSeq/Chain.pm 65.0 51.2 51.2 85.2 34.1 1.6 60.8
Bio/LiveSeq/ChainI.pm 27.4 0.0 0.0 23.6 1.9 0.0 18.1
Bio/LiveSeq/DNA.pm 80.0 50.0 33.3 83.3 100.0 0.0 77.5
Bio/LiveSeq/Exon.pm 68.7 33.3 n/a 75.0 100.0 0.0 64.2
Bio/LiveSeq/Gene.pm 70.0 61.6 33.3 73.9 10.5 0.0 57.9
Bio/LiveSeq/IO/BioPerl.pm 80.7 52.2 50.0 87.5 100.0 0.0 73.9
Bio/LiveSeq/IO/Loader.pm 45.2 32.0 20.4 65.5 41.6 0.0 42.0
Bio/LiveSeq/Intron.pm 100.0 n/a n/a 100.0 n/a 0.0 100.0
Bio/LiveSeq/Mutation.pm 90.2 84.0 75.0 100.0 100.0 0.0 89.5
Bio/LiveSeq/Mutator.pm 62.7 43.4 32.0 89.6 100.0 0.0 54.5
Bio/LiveSeq/Prim_Transcript.pm 100.0 n/a n/a 100.0 n/a 0.0 100.0
Bio/LiveSeq/Range.pm 69.7 50.0 33.3 100.0 100.0 0.0 63.6
Bio/LiveSeq/Repeat_Region.pm 100.0 n/a n/a 100.0 n/a 0.0 100.0
Bio/LiveSeq/Repeat_Unit.pm 100.0 n/a n/a 100.0 n/a 0.0 100.0
Bio/LiveSeq/SeqI.pm 50.0 44.0 16.6 75.7 96.1 0.2 50.5
Bio/LiveSeq/Transcript.pm 49.8 33.8 31.1 84.0 84.2 0.0 46.1
Bio/LiveSeq/Translation.pm 55.1 39.4 33.3 56.5 88.8 0.0 55.0
Bio/LocatableSeq.pm 93.6 85.3 78.3 90.9 93.7 0.3 88.8
Bio/Location/Atomic.pm 70.0 67.2 70.3 91.3 100.0 2.6 73.7
Bio/Location/AvWithinCoordPolicy.pm 89.4 50.0 33.3 100.0 100.0 0.0 70.2
Bio/Location/CoordinatePolicyI.pm 60.0 n/a n/a 50.0 100.0 0.0 62.5
Bio/Location/Fuzzy.pm 84.3 76.0 79.4 100.0 100.0 0.1 81.8
Bio/Location/FuzzyLocationI.pm 75.0 n/a n/a 66.6 100.0 0.0 75.0
Bio/Location/NarrowestCoordPolicy.pm 100.0 50.0 n/a 100.0 100.0 0.0 93.1
Bio/Location/Simple.pm 66.6 78.9 74.3 88.8 100.0 4.1 74.0
Bio/Location/Split.pm 89.3 69.7 65.4 95.4 100.0 1.7 80.6
Bio/Location/SplitLocationI.pm 60.0 n/a n/a 50.0 100.0 0.0 62.5
Bio/Location/WidestCoordPolicy.pm 100.0 100.0 n/a 100.0 100.0 0.2 100.0
Bio/LocationI.pm 36.5 50.0 n/a 26.3 100.0 0.1 47.5
Bio/Map/Clone.pm 38.4 10.0 40.0 50.0 100.0 0.0 36.1
Bio/Map/Contig.pm 50.7 25.0 16.6 63.1 100.0 0.0 45.4
Bio/Map/CytoMap.pm 100.0 50.0 n/a 100.0 100.0 0.0 96.6
Bio/Map/CytoMarker.pm 100.0 50.0 33.3 100.0 100.0 0.0 82.9
Bio/Map/CytoPosition.pm 87.9 85.1 72.6 100.0 100.0 0.0 84.3
Bio/Map/EntityI.pm 75.0 n/a n/a 66.6 100.0 0.0 75.0
Bio/Map/FPCMarker.pm 47.2 18.0 18.7 55.0 100.0 0.0 41.6
Bio/Map/Gene.pm 58.5 52.1 43.6 76.4 100.0 0.0 57.2
Bio/Map/GeneMap.pm 73.7 51.1 51.2 83.3 100.0 0.0 66.1
Bio/Map/GenePosition.pm 90.3 57.6 55.5 100.0 100.0 0.0 80.5
Bio/Map/GeneRelative.pm 84.0 65.1 34.7 90.0 100.0 0.0 72.5
Bio/Map/LinkageMap.pm 22.2 0.0 0.0 50.0 100.0 0.0 21.9
Bio/Map/LinkagePosition.pm 100.0 n/a n/a 100.0 n/a 0.0 100.0
Bio/Map/MapI.pm 84.7 70.8 66.6 61.5 100.0 0.0 80.3
Bio/Map/Mappable.pm 89.7 75.0 37.5 84.2 100.0 0.0 83.1
Bio/Map/MappableI.pm 68.0 100.0 66.6 50.0 100.0 0.0 72.2
Bio/Map/Marker.pm 95.0 70.0 47.0 100.0 100.0 0.0 82.2
Bio/Map/MarkerI.pm 42.8 n/a n/a 33.3 100.0 0.0 50.0
Bio/Map/Microsatellite.pm 84.3 78.5 n/a 76.9 100.0 0.0 83.5
Bio/Map/OrderedPosition.pm 65.3 30.0 9.0 62.5 100.0 0.0 52.4
Bio/Map/Physical.pm 37.0 32.6 8.3 76.6 100.0 0.0 36.9
Bio/Map/Position.pm 94.7 76.1 62.5 100.0 100.0 0.0 83.1
Bio/Map/PositionHandler.pm 99.1 69.2 80.0 100.0 100.0 0.0 90.8
Bio/Map/PositionHandlerI.pm 25.0 n/a n/a 18.1 100.0 0.0 38.6
Bio/Map/PositionI.pm 85.2 59.4 52.5 75.0 100.0 0.0 75.8
Bio/Map/PositionWithSequence.pm 100.0 87.5 n/a 100.0 100.0 0.0 97.0
Bio/Map/Prediction.pm 100.0 50.0 50.0 100.0 100.0 0.0 88.8
Bio/Map/Relative.pm 97.0 73.0 54.5 100.0 100.0 0.0 85.8
Bio/Map/RelativeI.pm 33.3 n/a n/a 25.0 100.0 0.0 43.7
Bio/Map/SimpleMap.pm 87.1 70.0 62.5 86.6 100.0 0.0 82.2
Bio/Map/TranscriptionFactor.pm 82.1 50.0 20.0 83.3 100.0 0.0 70.9
Bio/MapIO.pm 70.4 25.0 40.0 66.6 100.0 0.0 59.2
Bio/MapIO/fpc.pm 85.2 70.0 57.5 90.9 100.0 0.0 78.5
Bio/MapIO/mapmaker.pm 94.1 100.0 100.0 85.7 100.0 0.0 94.6
Bio/Matrix/Generic.pm 67.5 47.7 29.1 89.6 96.1 0.0 64.4
Bio/Matrix/IO.pm 53.5 25.0 20.0 42.8 100.0 0.0 46.5
Bio/Matrix/IO/mlagan.pm 97.1 70.0 33.3 100.0 100.0 0.0 89.0
Bio/Matrix/IO/phylip.pm 55.5 42.8 50.0 85.7 100.0 0.0 56.8
Bio/Matrix/IO/scoring.pm 72.3 75.0 n/a 80.0 100.0 0.0 74.3
Bio/Matrix/MatrixI.pm 18.7 n/a n/a 13.3 92.3 0.0 33.3
Bio/Matrix/Mlagan.pm 82.6 100.0 50.0 55.5 100.0 0.0 78.7
Bio/Matrix/PSM/IO.pm 58.9 31.2 25.0 42.8 100.0 0.0 51.0
Bio/Matrix/PSM/IO/mast.pm 90.0 80.6 100.0 88.8 100.0 0.0 87.7
Bio/Matrix/PSM/IO/masta.pm 97.8 78.2 55.0 100.0 100.0 0.0 90.1
Bio/Matrix/PSM/IO/meme.pm 87.8 67.5 88.8 92.3 100.0 0.0 84.5
Bio/Matrix/PSM/IO/psiblast.pm 100.0 66.6 n/a 100.0 100.0 0.0 96.8
Bio/Matrix/PSM/IO/transfac.pm 74.0 52.1 66.6 92.3 100.0 0.0 70.2
Bio/Matrix/PSM/InstanceSite.pm 52.1 26.9 60.0 45.4 100.0 0.0 50.0
Bio/Matrix/PSM/InstanceSiteI.pm 37.5 n/a n/a 28.5 100.0 0.0 46.4
Bio/Matrix/PSM/ProtMatrix.pm 63.2 28.8 0.0 64.0 100.0 0.0 54.7
Bio/Matrix/PSM/Psm.pm 97.6 75.0 33.3 100.0 100.0 0.0 92.1
Bio/Matrix/PSM/PsmHeader.pm 94.0 68.7 83.3 92.8 88.8 0.0 86.7
Bio/Matrix/PSM/PsmHeaderI.pm 45.4 n/a n/a 35.7 87.5 0.0 49.0
Bio/Matrix/PSM/PsmI.pm 60.0 n/a n/a 50.0 100.0 0.0 62.5
Bio/Matrix/PSM/SiteMatrix.pm 67.4 51.1 58.2 85.7 100.0 0.0 63.3
Bio/Matrix/PSM/SiteMatrixI.pm 6.1 n/a n/a 4.1 100.0 0.0 24.1
Bio/Matrix/PhylipDist.pm 79.5 58.7 33.3 63.6 100.0 0.0 73.3
Bio/Matrix/Scoring.pm 81.6 60.0 n/a 92.3 100.0 0.0 80.6
Bio/MolEvol/CodonModel.pm 100.0 n/a n/a 100.0 100.0 0.0 100.0
Bio/Ontology/DocumentRegistry.pm 66.6 0.0 n/a 57.1 100.0 0.0 63.3
Bio/Ontology/GOterm.pm 94.1 66.6 46.1 100.0 100.0 0.0 86.8
Bio/Ontology/OBOEngine.pm 91.3 68.7 47.6 96.2 100.0 0.2 86.0
Bio/Ontology/OBOterm.pm 100.0 n/a n/a 100.0 100.0 0.0 100.0
Bio/Ontology/Ontology.pm 72.3 53.8 41.6 78.5 100.0 0.0 70.4
Bio/Ontology/OntologyEngineI.pm 22.5 0.0 0.0 15.0 100.0 0.0 34.5
Bio/Ontology/OntologyI.pm 46.1 n/a n/a 22.2 100.0 0.0 51.7
Bio/Ontology/OntologyStore.pm 40.0 15.6 5.8 75.0 100.0 0.0 35.9
Bio/Ontology/Relationship.pm 94.5 83.3 n/a 100.0 100.0 0.0 92.3
Bio/Ontology/RelationshipFactory.pm 100.0 n/a 50.0 100.0 100.0 0.0 95.2
Bio/Ontology/RelationshipI.pm 54.5 n/a n/a 28.5 100.0 0.0 56.5
Bio/Ontology/RelationshipType.pm 84.0 48.2 35.1 90.9 100.0 0.0 68.5
Bio/Ontology/SimpleGOEngine/GraphAdaptor.pm 100.0 100.0 33.3 100.0 6.2 0.1 83.0
Bio/Ontology/SimpleOntologyEngine.pm 61.8 55.3 40.7 69.2 100.0 0.0 61.6
Bio/Ontology/Term.pm 71.3 67.3 13.6 66.6 91.6 0.1 68.5
Bio/Ontology/TermFactory.pm 100.0 n/a 100.0 100.0 100.0 0.0 100.0
Bio/Ontology/TermI.pm 21.4 0.0 0.0 14.2 100.0 0.0 31.7
Bio/OntologyIO.pm 94.1 71.4 33.3 90.0 75.0 0.0 86.5
Bio/OntologyIO/dagflat.pm 88.7 69.0 66.6 97.5 71.4 0.0 82.6
Bio/OntologyIO/goflat.pm 100.0 50.0 n/a 100.0 n/a 0.0 96.1
Bio/OntologyIO/obo.pm 91.0 71.0 70.8 100.0 100.0 0.2 85.6
Bio/OntologyIO/soflat.pm 100.0 50.0 n/a 100.0 n/a 0.0 96.1
Bio/Perl.pm 43.0 18.2 14.2 66.6 100.0 0.0 39.1
Bio/Phenotype/Correlate.pm 95.4 88.4 n/a 100.0 100.0 0.0 94.6
Bio/Phenotype/MeSH/Term.pm 70.2 71.4 n/a 61.5 100.0 0.0 72.9
Bio/Phenotype/MeSH/Twig.pm 100.0 70.0 n/a 100.0 100.0 0.0 95.7
Bio/Phenotype/Measure.pm 100.0 100.0 n/a 100.0 100.0 0.0 100.0
Bio/Phenotype/OMIM/MiniMIMentry.pm 100.0 100.0 n/a 100.0 100.0 0.0 100.0
Bio/Phenotype/OMIM/OMIMentry.pm 88.7 58.3 59.2 90.6 91.3 0.0 80.2
Bio/Phenotype/OMIM/OMIMentryAllelicVariant.pm 100.0 100.0 n/a 100.0 100.0 0.0 100.0
Bio/Phenotype/OMIM/OMIMparser.pm 91.5 73.8 66.6 95.6 100.0 0.0 86.8
Bio/Phenotype/Phenotype.pm 98.4 72.4 n/a 100.0 100.0 0.0 94.2
Bio/Phenotype/PhenotypeI.pm 4.6 n/a n/a 3.1 100.0 0.0 27.3
Bio/PhyloNetwork.pm 87.6 75.0 79.7 92.1 47.6 8.1 83.0
Bio/PhyloNetwork/Factory.pm 97.8 91.6 80.0 100.0 66.6 0.0 95.4
Bio/PhyloNetwork/RandomFactory.pm 96.8 58.3 40.0 100.0 66.6 0.2 88.0
Bio/PhyloNetwork/TreeFactory.pm 98.4 92.8 66.6 100.0 100.0 0.0 96.7
Bio/PhyloNetwork/muVector.pm 97.7 70.8 n/a 93.7 83.3 0.9 91.3
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Bio/PopGen/GenotypeI.pm 42.8 n/a n/a 33.3 100.0 0.0 50.0
Bio/PopGen/HtSNP.pm 91.4 81.9 n/a 86.9 89.4 0.0 89.3
Bio/PopGen/IO.pm 50.0 28.5 10.0 38.8 100.0 0.0 45.6
Bio/PopGen/IO/csv.pm 88.4 71.4 61.9 100.0 100.0 0.0 83.2
Bio/PopGen/IO/hapmap.pm 86.5 69.2 66.6 78.5 100.0 0.0 82.0
Bio/PopGen/IO/phase.pm 89.4 69.5 42.4 91.6 100.0 0.0 79.4
Bio/PopGen/IO/prettybase.pm 87.5 55.8 47.0 100.0 100.0 0.0 77.7
Bio/PopGen/Individual.pm 73.2 59.3 26.6 78.5 100.0 0.7 67.6
Bio/PopGen/IndividualI.pm 30.0 n/a n/a 22.2 85.7 0.0 38.8
Bio/PopGen/Marker.pm 73.0 42.3 0.0 71.4 100.0 0.0 66.6
Bio/PopGen/MarkerI.pm 33.3 n/a n/a 22.2 100.0 0.0 44.1
Bio/PopGen/PopStats.pm 83.7 57.1 60.0 100.0 100.0 0.0 79.4
Bio/PopGen/Population.pm 84.7 57.5 25.9 85.7 100.0 0.3 73.1
Bio/PopGen/PopulationI.pm 44.4 n/a n/a 30.7 100.0 0.0 52.0
Bio/PopGen/Simulation/Coalescent.pm 91.5 58.8 33.3 100.0 100.0 0.0 83.9
Bio/PopGen/Simulation/GeneticDrift.pm 76.8 64.2 33.3 81.8 100.0 0.0 69.9
Bio/PopGen/Statistics.pm 81.8 64.0 52.0 92.0 100.0 0.1 75.5
Bio/PopGen/TagHaplotype.pm 91.7 80.0 n/a 93.7 83.3 0.0 89.2
Bio/PopGen/Utilities.pm 88.0 55.5 53.3 100.0 100.0 0.0 79.3
Bio/PrimarySeq.pm 93.9 93.0 87.5 96.0 95.0 1.7 93.3
Bio/PrimarySeqI.pm 72.2 68.6 73.8 57.1 100.0 0.3 71.7
Bio/PullParserI.pm 84.0 68.1 70.2 100.0 100.0 0.1 79.2
Bio/Range.pm 60.0 40.6 60.0 81.8 100.0 0.1 59.2
Bio/RangeI.pm 81.1 57.2 61.5 100.0 100.0 0.6 73.1
Bio/Restriction/Analysis.pm 73.8 60.0 55.5 76.6 100.0 0.2 70.2
Bio/Restriction/Enzyme.pm 81.8 67.8 59.6 88.6 85.7 1.0 76.4
Bio/Restriction/Enzyme/MultiCut.pm 92.0 83.3 n/a 85.7 100.0 0.0 90.2
Bio/Restriction/Enzyme/MultiSite.pm 92.0 66.6 n/a 85.7 100.0 0.0 87.8
Bio/Restriction/EnzymeCollection.pm 86.0 76.3 77.7 92.3 100.0 0.0 84.4
Bio/Restriction/EnzymeI.pm 16.2 n/a n/a 6.0 96.7 0.0 37.6
Bio/Restriction/IO.pm 65.8 41.6 60.0 54.5 83.3 0.0 61.3
Bio/Restriction/IO/base.pm 64.7 34.3 33.3 66.6 100.0 0.0 56.2
Bio/Restriction/IO/itype2.pm 91.0 71.4 n/a 87.5 100.0 0.0 85.1
Bio/Restriction/IO/withrefm.pm 95.4 81.8 50.0 90.9 100.0 0.2 89.7
Bio/Root/Exception.pm 96.3 80.0 55.5 100.0 100.0 0.1 86.1
Bio/Root/HTTPget.pm 8.2 0.0 0.0 33.3 100.0 0.0 6.2
Bio/Root/IO.pm 62.6 42.2 38.0 96.9 100.0 4.2 54.1
Bio/Root/Root.pm 69.0 52.7 48.7 94.1 100.0 5.5 64.2
Bio/Root/RootI.pm 85.4 68.4 56.9 76.0 100.0 4.1 77.2
Bio/Root/Storable.pm 83.5 56.9 45.0 100.0 100.0 0.0 76.6
Bio/Root/Test.pm 72.6 57.8 36.3 86.9 100.0 15.4 65.8
Bio/Root/TestObject.pm 93.7 40.0 33.3 100.0 0.0 0.0 68.5
Bio/Root/Utilities.pm 46.6 34.0 39.3 60.0 100.0 0.0 44.0
Bio/Root/Version.pm 100.0 100.0 100.0 100.0 n/a 0.0 100.0
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Bio/Search/BlastUtils.pm 1.7 0.0 0.0 16.6 100.0 0.0 2.7
Bio/Search/GenericStatistics.pm 100.0 n/a n/a 100.0 100.0 0.0 100.0
Bio/Search/HSP/BlastPullHSP.pm 92.9 80.8 70.3 92.3 100.0 0.2 87.8
Bio/Search/HSP/FastaHSP.pm 96.0 66.6 33.3 100.0 100.0 0.0 81.2
Bio/Search/HSP/GenericHSP.pm 90.0 77.4 71.3 100.0 100.0 0.6 84.1
Bio/Search/HSP/HMMERHSP.pm 70.0 n/a n/a 75.0 100.0 0.0 75.0
Bio/Search/HSP/HSPFactory.pm 93.3 62.5 33.3 100.0 100.0 0.0 86.2
Bio/Search/HSP/HSPI.pm 55.9 53.4 57.8 35.7 96.0 0.0 57.2
Bio/Search/HSP/HmmpfamHSP.pm 100.0 84.6 46.6 100.0 100.0 0.0 92.6
Bio/Search/HSP/ModelHSP.pm 93.8 60.0 54.5 100.0 100.0 0.0 87.1
Bio/Search/HSP/PSLHSP.pm 88.4 56.2 n/a 100.0 100.0 0.0 80.0
Bio/Search/HSP/PullHSPI.pm 68.5 50.0 30.3 87.5 100.0 0.0 61.9
Bio/Search/HSP/WABAHSP.pm 88.5 80.0 100.0 83.3 100.0 0.0 87.7
Bio/Search/Hit/BlastHit.pm 65.2 25.0 n/a 57.1 75.0 0.0 57.1
Bio/Search/Hit/BlastPullHit.pm 95.6 91.6 72.4 85.7 100.0 0.0 90.3
Bio/Search/Hit/GenericHit.pm 71.6 58.5 56.6 83.6 100.0 0.2 67.6
Bio/Search/Hit/HMMERHit.pm 80.0 n/a n/a 66.6 100.0 0.0 80.0
Bio/Search/Hit/HitFactory.pm 93.3 62.5 33.3 100.0 100.0 0.0 86.2
Bio/Search/Hit/HitI.pm 11.6 0.0 0.0 9.3 93.1 0.0 27.8
Bio/Search/Hit/HmmpfamHit.pm 93.0 83.3 62.0 95.0 100.0 0.0 87.3
Bio/Search/Hit/ModelHit.pm 77.1 42.1 50.0 92.3 100.0 0.0 73.8
Bio/Search/Hit/PullHitI.pm 81.2 59.6 56.0 83.3 100.0 0.0 74.7
Bio/Search/Iteration/GenericIteration.pm 66.5 47.6 43.4 74.0 100.0 0.0 63.7
Bio/Search/Iteration/IterationI.pm 18.1 n/a n/a 9.5 100.0 0.0 36.9
Bio/Search/Result/BlastPullResult.pm 96.3 83.7 57.1 92.8 100.0 0.0 89.3
Bio/Search/Result/BlastResult.pm 69.6 50.0 20.0 66.6 100.0 0.0 66.8
Bio/Search/Result/CrossMatchResult.pm 20.5 5.5 0.0 25.0 93.7 0.0 23.9
Bio/Search/Result/GenericResult.pm 90.8 84.6 75.6 85.2 100.0 0.0 87.8
Bio/Search/Result/HMMERResult.pm 87.5 75.0 n/a 75.0 100.0 0.0 84.7
Bio/Search/Result/HmmpfamResult.pm 96.9 65.9 50.0 93.3 100.0 0.0 85.9
Bio/Search/Result/INFERNALResult.pm 100.0 100.0 n/a 100.0 100.0 0.0 100.0
Bio/Search/Result/PullResultI.pm 78.3 56.2 33.3 88.4 100.0 0.0 77.5
Bio/Search/Result/ResultFactory.pm 93.3 62.5 33.3 100.0 100.0 0.0 86.2
Bio/Search/Result/ResultI.pm 10.3 0.0 n/a 8.3 100.0 0.0 26.6
Bio/Search/Result/WABAResult.pm 100.0 75.0 n/a 100.0 100.0 0.0 96.0
Bio/Search/SearchUtils.pm 81.8 62.6 89.6 72.7 100.0 0.0 77.1
Bio/Search/StatisticsI.pm 60.0 n/a n/a 50.0 100.0 0.0 62.5
Bio/Search/Tiling/MapTileUtils.pm 68.9 52.5 54.8 84.0 58.3 0.1 64.7
Bio/Search/Tiling/MapTiling.pm 83.7 68.3 50.9 91.4 91.6 0.2 79.3
Bio/Search/Tiling/TilingI.pm 31.7 n/a n/a 23.8 70.5 0.0 37.9
Bio/SearchIO.pm 64.1 56.2 27.2 54.8 100.0 0.1 60.4
Bio/SearchIO/EventHandlerI.pm 31.0 n/a n/a 23.0 100.0 0.0 42.3
Bio/SearchIO/IteratedSearchResultEventBuilder.pm 96.7 100.0 39.1 100.0 100.0 0.0 89.2
Bio/SearchIO/SearchResultEventBuilder.pm 87.3 65.5 54.0 95.4 100.0 1.0 75.8
Bio/SearchIO/SearchWriterI.pm 52.9 37.5 83.3 40.0 100.0 0.0 57.5
Bio/SearchIO/Writer/GbrowseGFF.pm 61.4 37.5 29.0 80.0 80.0 0.0 51.5
Bio/SearchIO/Writer/HSPTableWriter.pm 89.6 43.7 33.3 100.0 66.6 0.0 69.3
Bio/SearchIO/Writer/HTMLResultWriter.pm 76.7 43.5 31.7 88.8 86.3 0.0 61.5
Bio/SearchIO/Writer/HitTableWriter.pm 92.0 50.0 33.3 100.0 66.6 0.0 75.5
Bio/SearchIO/Writer/ResultTableWriter.pm 68.2 40.0 0.0 75.0 62.5 0.0 62.7
Bio/SearchIO/Writer/TextResultWriter.pm 75.9 47.5 30.8 86.3 86.6 0.0 62.0
Bio/SearchIO/axt.pm 84.2 58.7 46.6 85.7 91.6 0.0 77.6
Bio/SearchIO/blast.pm 91.6 86.9 79.2 91.6 92.3 1.9 88.5
Bio/SearchIO/blast_pull.pm 83.0 55.0 50.0 77.7 100.0 0.0 73.4
Bio/SearchIO/blasttable.pm 86.7 72.3 61.1 80.9 91.6 0.1 80.2
Bio/SearchIO/cross_match.pm 59.0 41.6 46.6 77.7 100.0 0.0 54.3
Bio/SearchIO/erpin.pm 90.9 74.4 59.5 88.8 100.0 0.0 82.5
Bio/SearchIO/exonerate.pm 82.3 66.6 37.0 77.7 93.3 0.0 76.1
Bio/SearchIO/fasta.pm 66.8 48.8 43.5 85.7 100.0 0.1 58.0
Bio/SearchIO/gmap_f9.pm 70.2 23.4 55.5 80.0 100.0 0.7 54.8
Bio/SearchIO/hmmer.pm 100.0 83.3 33.3 100.0 100.0 0.0 94.1
Bio/SearchIO/hmmer2.pm 92.0 82.4 83.3 93.3 100.0 1.7 88.1
Bio/SearchIO/hmmer3.pm 94.5 83.1 83.7 94.4 100.0 0.0 89.6
Bio/SearchIO/hmmer_pull.pm 83.3 37.5 60.0 90.0 100.0 0.0 71.9
Bio/SearchIO/infernal.pm 96.9 80.6 65.2 96.5 100.0 0.0 87.9
Bio/SearchIO/megablast.pm 75.1 60.0 33.3 72.2 91.6 0.0 70.1
Bio/SearchIO/psl.pm 83.2 64.0 58.6 80.0 91.6 0.0 77.3
Bio/SearchIO/rnamotif.pm 88.2 59.4 38.7 91.3 100.0 0.0 73.4
Bio/SearchIO/sim4.pm 84.1 69.4 44.4 77.7 91.6 0.0 74.6
Bio/SearchIO/waba.pm 82.0 62.5 53.3 85.0 90.9 0.0 76.5
Bio/SearchIO/wise.pm 75.8 53.8 33.3 70.0 92.8 0.0 69.6
Bio/Seq.pm 89.3 83.3 61.1 84.2 90.9 0.2 85.6
Bio/Seq/EncodedSeq.pm 75.0 58.1 60.0 81.8 100.0 0.0 68.0
Bio/Seq/LargeLocatableSeq.pm 62.7 44.6 35.2 90.9 100.0 0.0 57.6
Bio/Seq/LargePrimarySeq.pm 85.1 71.4 70.0 100.0 100.0 0.0 80.7
Bio/Seq/LargeSeq.pm 91.3 100.0 n/a 85.7 100.0 0.0 91.4
Bio/Seq/LargeSeqI.pm 75.0 n/a n/a 66.6 100.0 0.0 75.0
Bio/Seq/Meta.pm 82.4 65.7 40.5 73.9 94.1 0.0 72.4
Bio/Seq/Meta/Array.pm 86.0 66.2 38.2 95.0 100.0 0.0 76.8
Bio/Seq/MetaI.pm 28.5 n/a n/a 11.7 100.0 0.0 43.4
Bio/Seq/PrimaryQual.pm 74.5 78.5 87.5 82.3 93.3 0.0 78.5
Bio/Seq/PrimedSeq.pm 75.0 46.6 31.9 100.0 100.0 0.0 59.8
Bio/Seq/QualI.pm 11.2 0.0 n/a 22.2 100.0 0.0 17.8
Bio/Seq/Quality.pm 88.5 69.3 52.9 93.1 80.0 0.6 81.9
Bio/Seq/RichSeq.pm 87.1 96.6 66.6 85.7 75.0 0.0 87.1
Bio/Seq/RichSeqI.pm 30.0 n/a n/a 22.2 100.0 0.0 41.6
Bio/Seq/SeqBuilder.pm 92.3 75.0 66.6 94.7 100.0 0.0 88.6
Bio/Seq/SeqFactory.pm 92.0 75.0 66.6 100.0 100.0 0.0 88.6
Bio/Seq/SeqFastaSpeedFactory.pm 97.1 66.6 50.0 100.0 100.0 0.0 89.0
Bio/Seq/SeqWithQuality.pm 51.6 46.3 33.3 51.6 100.0 0.0 51.7
Bio/Seq/SequenceTrace.pm 79.7 75.0 33.3 86.0 93.3 2.8 78.0
Bio/Seq/SimulatedRead.pm 91.8 80.4 65.9 100.0 100.0 0.0 86.3
Bio/Seq/TraceI.pm 34.2 0.0 n/a 40.0 100.0 0.0 36.0
Bio/SeqAnalysisParserI.pm 81.8 n/a n/a 75.0 100.0 0.0 81.2
Bio/SeqEvolution/DNAPoint.pm 88.3 63.8 100.0 93.3 100.0 0.0 84.7
Bio/SeqEvolution/EvolutionI.pm 66.6 n/a n/a 40.0 100.0 0.0 64.7
Bio/SeqEvolution/Factory.pm 80.3 70.5 42.8 86.9 86.6 0.0 78.4
Bio/SeqFeature/Amplicon.pm 92.3 70.0 33.3 100.0 100.0 0.0 85.4
Bio/SeqFeature/AnnotationAdaptor.pm 78.0 46.3 41.6 91.6 100.0 0.0 66.3
Bio/SeqFeature/CollectionI.pm 81.8 n/a n/a 60.0 100.0 0.0 77.7
Bio/SeqFeature/Computation.pm 65.8 50.0 33.3 71.4 100.0 0.0 64.1
Bio/SeqFeature/FeaturePair.pm 88.5 83.3 66.6 79.3 91.6 0.2 84.9
Bio/SeqFeature/Gene/Exon.pm 96.4 78.5 44.4 100.0 100.0 0.0 85.2
Bio/SeqFeature/Gene/ExonI.pm 60.0 n/a n/a 50.0 100.0 0.0 62.5
Bio/SeqFeature/Gene/GeneStructure.pm 64.2 42.3 33.3 72.2 92.3 0.0 63.2
Bio/SeqFeature/Gene/GeneStructureI.pm 42.8 n/a n/a 33.3 100.0 0.0 50.0
Bio/SeqFeature/Gene/Intron.pm 53.1 25.9 33.3 70.0 100.0 0.0 47.0
Bio/SeqFeature/Gene/NC_Feature.pm 81.2 75.0 n/a 80.0 100.0 0.0 82.1
Bio/SeqFeature/Gene/Poly_A_site.pm 100.0 n/a n/a 100.0 100.0 0.0 100.0
Bio/SeqFeature/Gene/Promoter.pm 75.0 n/a n/a 66.6 100.0 0.0 75.0
Bio/SeqFeature/Gene/Transcript.pm 73.8 55.8 59.0 75.0 86.9 0.0 69.2
Bio/SeqFeature/Gene/TranscriptI.pm 46.8 75.0 33.3 33.3 100.0 0.0 53.3
Bio/SeqFeature/Gene/UTR.pm 95.4 62.5 50.0 100.0 100.0 0.0 83.3
Bio/SeqFeature/Generic.pm 85.6 80.4 66.2 88.6 85.2 4.5 81.9
Bio/SeqFeature/Lite.pm 11.5 10.0 9.5 7.0 59.0 0.0 14.5
Bio/SeqFeature/Primer.pm 98.4 92.8 n/a 100.0 100.0 0.0 97.8
Bio/SeqFeature/SiRNA/Oligo.pm 86.4 50.0 40.0 100.0 100.0 0.0 72.0
Bio/SeqFeature/SiRNA/Pair.pm 58.6 35.0 25.0 80.0 100.0 0.0 50.6
Bio/SeqFeature/Similarity.pm 100.0 85.0 n/a 100.0 100.0 0.0 95.2
Bio/SeqFeature/SimilarityPair.pm 80.0 58.3 50.0 91.6 100.0 0.0 76.0
Bio/SeqFeature/SubSeq.pm 90.4 83.3 44.4 100.0 100.0 0.0 84.3
Bio/SeqFeature/Tools/FeatureNamer.pm 72.7 90.0 62.5 83.3 100.0 0.0 77.0
Bio/SeqFeature/Tools/IDHandler.pm 30.6 22.2 33.3 50.0 100.0 0.0 33.3
Bio/SeqFeature/Tools/TypeMapper.pm 12.2 0.0 0.0 25.0 83.3 0.0 12.7
Bio/SeqFeature/Tools/Unflattener.pm 75.3 64.5 65.0 78.5 72.7 0.9 71.7
Bio/SeqFeatureI.pm 69.4 63.0 46.3 44.0 94.4 0.1 64.7
Bio/SeqI.pm 35.2 0.0 n/a 33.3 100.0 0.0 41.3
Bio/SeqIO.pm 81.8 69.4 55.2 69.2 100.0 0.1 74.3
Bio/SeqIO/FTHelper.pm 88.2 68.1 100.0 92.3 100.0 0.5 86.0
Bio/SeqIO/Handler/GenericRichSeqHandler.pm 78.8 58.8 60.6 95.8 91.6 0.0 73.1
Bio/SeqIO/MultiFile.pm 82.1 69.2 33.3 88.8 100.0 0.0 78.3
Bio/SeqIO/ace.pm 97.8 68.7 33.3 100.0 100.0 0.0 85.1
Bio/SeqIO/agave.pm 6.7 0.0 0.0 24.4 100.0 0.0 7.0
Bio/SeqIO/asciitree.pm 78.8 65.3 40.0 87.5 75.0 0.0 74.5
Bio/SeqIO/bsml_sax.pm 96.8 87.9 66.6 100.0 100.0 0.0 93.9
Bio/SeqIO/chadoxml.pm 8.8 0.0 0.0 47.6 100.0 0.0 7.3
Bio/SeqIO/chaos.pm 77.7 57.8 42.8 87.1 21.4 0.1 70.1
Bio/SeqIO/chaosxml.pm 100.0 n/a n/a 100.0 0.0 0.0 93.3
Bio/SeqIO/embl.pm 83.5 61.5 70.3 90.9 100.0 0.0 74.7
Bio/SeqIO/embldriver.pm 89.0 84.4 64.7 80.0 75.0 0.0 84.4
Bio/SeqIO/excel.pm 100.0 78.5 50.0 100.0 100.0 0.0 94.8
Bio/SeqIO/fasta.pm 88.5 61.2 50.0 100.0 100.0 0.0 75.3
Bio/SeqIO/fastq.pm 86.8 74.2 87.1 69.2 100.0 0.1 83.2
Bio/SeqIO/flybase_chadoxml.pm 21.4 0.0 0.0 33.3 100.0 0.0 26.1
Bio/SeqIO/gbdriver.pm 69.6 58.7 56.5 83.3 75.0 0.0 64.5
Bio/SeqIO/gbxml.pm 91.2 71.0 35.2 100.0 100.0 0.0 82.1
Bio/SeqIO/gcg.pm 95.3 65.5 56.2 100.0 100.0 0.0 83.3
Bio/SeqIO/genbank.pm 84.9 76.2 66.6 96.1 100.0 1.3 80.8
Bio/SeqIO/kegg.pm 90.8 50.0 33.3 90.9 100.0 0.0 80.5
Bio/SeqIO/largefasta.pm 92.5 60.0 50.0 100.0 100.0 0.0 81.0
Bio/SeqIO/lasergene.pm 92.6 88.8 n/a 85.7 100.0 0.0 91.1
Bio/SeqIO/locuslink.pm 87.8 66.0 33.3 94.7 11.1 0.0 79.8
Bio/SeqIO/mbsout.pm 92.6 76.0 40.0 96.6 86.3 0.0 89.1
Bio/SeqIO/metafasta.pm 89.1 44.7 33.3 100.0 100.0 0.0 71.7
Bio/SeqIO/msout.pm 95.0 87.1 66.6 96.6 86.3 0.0 91.6
Bio/SeqIO/phd.pm 83.1 80.0 25.0 65.2 20.0 0.0 73.6
Bio/SeqIO/pir.pm 92.1 50.0 33.3 100.0 100.0 0.0 74.0
Bio/SeqIO/qual.pm 71.6 42.8 52.1 80.0 100.0 0.0 62.0
Bio/SeqIO/raw.pm 71.1 50.0 45.4 75.0 100.0 0.0 64.0
Bio/SeqIO/scf.pm 71.8 54.2 35.7 70.2 83.3 1.3 67.6
Bio/SeqIO/strider.pm 39.4 0.0 0.0 62.5 100.0 0.0 27.5
Bio/SeqIO/swiss.pm 79.8 67.2 64.0 87.5 100.0 0.0 74.6
Bio/SeqIO/swissdriver.pm 91.1 64.0 60.0 88.8 100.0 0.0 80.1
Bio/SeqIO/tab.pm 92.0 66.6 33.3 100.0 100.0 0.0 82.9
Bio/SeqIO/table.pm 97.0 87.2 64.1 95.6 100.0 0.0 89.9
Bio/SeqIO/tigr.pm 4.5 0.0 0.0 22.7 100.0 0.0 4.1
Bio/SeqIO/tigrxml.pm 77.4 60.9 57.1 100.0 85.7 0.0 72.8
Bio/SeqUtils.pm 93.3 64.6 50.8 100.0 100.0 0.4 79.4
Bio/SimpleAlign.pm 86.2 69.0 62.3 83.3 89.7 0.6 79.7
Bio/SimpleAnalysisI.pm 42.8 n/a n/a 20.0 100.0 0.0 50.0
Bio/Species.pm 72.9 65.2 60.4 48.8 44.7 0.1 64.5
Bio/Structure/Atom.pm 52.3 56.0 n/a 46.1 63.6 0.0 53.6
Bio/Structure/Chain.pm 60.0 50.0 n/a 53.8 100.0 0.0 60.2
Bio/Structure/Entry.pm 71.0 55.6 44.4 83.7 100.0 0.0 66.5
Bio/Structure/IO.pm 53.1 25.0 37.5 50.0 80.0 0.0 44.9
Bio/Structure/IO/pdb.pm 79.2 58.0 47.8 94.4 100.0 0.0 69.2
Bio/Structure/Model.pm 52.1 50.0 n/a 43.7 100.0 0.0 54.3
Bio/Structure/Residue.pm 72.5 70.0 n/a 61.5 100.0 0.0 72.0
Bio/Structure/StructureI.pm 100.0 n/a n/a 100.0 n/a 0.0 100.0
Bio/Symbol/Alphabet.pm 68.4 57.1 44.4 83.3 100.0 0.0 66.2
Bio/Symbol/AlphabetI.pm 50.0 n/a n/a 40.0 100.0 0.0 55.0
Bio/Symbol/DNAAlphabet.pm 100.0 100.0 66.6 100.0 100.0 0.0 95.6
Bio/Symbol/ProteinAlphabet.pm 100.0 100.0 n/a 100.0 100.0 0.0 100.0
Bio/Symbol/Symbol.pm 97.4 83.3 57.1 100.0 100.0 0.0 91.1
Bio/Symbol/SymbolI.pm 37.5 n/a n/a 28.5 100.0 0.0 46.4
Bio/Taxon.pm 82.5 63.1 46.7 86.2 100.0 0.4 72.9
Bio/Tools/Alignment/Consed.pm 44.6 40.5 43.4 41.5 100.0 0.0 46.1
Bio/Tools/Alignment/Trim.pm 13.2 0.0 6.6 42.8 100.0 0.0 14.9
Bio/Tools/AmpliconSearch.pm 93.5 84.8 71.4 100.0 100.0 0.0 90.3
Bio/Tools/Analysis/Protein/Scansite.pm 37.3 14.2 8.3 66.6 100.0 0.0 35.0
Bio/Tools/Analysis/SimpleAnalysisBase.pm 45.9 20.8 0.0 47.0 100.0 0.0 43.8
Bio/Tools/AnalysisResult.pm 85.7 57.1 n/a 90.9 85.7 0.0 81.4
Bio/Tools/CodonTable.pm 94.1 81.5 60.9 96.0 100.0 0.7 88.3
Bio/Tools/ECnumber.pm 91.6 79.1 66.6 100.0 100.0 0.0 87.0
Bio/Tools/EMBOSS/Palindrome.pm 92.3 86.6 33.3 100.0 100.0 0.0 89.3
Bio/Tools/EPCR.pm 100.0 81.8 n/a 100.0 100.0 0.0 94.8
Bio/Tools/Est2Genome.pm 90.9 72.2 66.6 92.3 100.0 0.0 84.8
Bio/Tools/Fgenesh.pm 80.9 62.5 41.6 81.2 100.0 0.0 72.8
Bio/Tools/FootPrinter.pm 96.7 73.3 44.4 100.0 0.0 0.0 87.5
Bio/Tools/GFF.pm 62.4 43.8 34.0 68.5 92.3 0.0 54.2
Bio/Tools/Gel.pm 92.3 50.0 37.5 100.0 83.3 0.0 78.5
Bio/Tools/Geneid.pm 98.9 91.6 66.6 100.0 100.0 0.0 97.0
Bio/Tools/Genemark.pm 89.1 78.5 60.0 90.0 100.0 0.0 85.2
Bio/Tools/Genewise.pm 95.3 75.0 66.6 100.0 66.6 0.0 90.9
Bio/Tools/Genomewise.pm 96.6 80.0 n/a 100.0 100.0 0.0 95.1
Bio/Tools/Genscan.pm 95.5 83.8 66.6 100.0 100.0 0.0 91.4
Bio/Tools/Glimmer.pm 91.3 85.2 60.5 90.0 100.0 0.0 86.0
Bio/Tools/GuessSeqFormat.pm 81.3 62.5 65.4 93.0 100.0 0.1 77.0
Bio/Tools/HMMER/Domain.pm 62.3 50.0 n/a 61.1 73.3 0.0 63.0
Bio/Tools/HMMER/Results.pm 51.5 52.1 20.0 62.0 72.7 0.0 51.4
Bio/Tools/HMMER/Set.pm 85.1 80.0 33.3 84.6 80.0 0.0 82.0
Bio/Tools/IUPAC.pm 87.5 61.1 57.8 94.1 100.0 0.1 80.7
Bio/Tools/Lucy.pm 87.4 46.3 33.3 100.0 100.0 0.0 76.6
Bio/Tools/MZEF.pm 94.1 75.0 50.0 100.0 100.0 0.0 88.8
Bio/Tools/Match.pm 96.7 50.0 42.8 100.0 100.0 0.0 87.5
Bio/Tools/OddCodes.pm 96.7 40.0 33.3 100.0 100.0 0.0 90.1
Bio/Tools/Phylo/Gerp.pm 100.0 50.0 75.0 100.0 100.0 0.0 95.1
Bio/Tools/Phylo/Molphy.pm 96.7 86.9 100.0 100.0 100.0 0.0 94.4
Bio/Tools/Phylo/Molphy/Result.pm 84.5 66.6 50.0 90.9 88.8 0.0 78.5
Bio/Tools/Phylo/Phylip/ProtDist.pm 93.1 70.0 66.6 100.0 100.0 0.0 89.0
Bio/Tools/Prediction/Exon.pm 61.9 0.0 n/a 77.7 100.0 0.0 65.8
Bio/Tools/Prediction/Gene.pm 100.0 66.6 66.6 100.0 100.0 0.0 91.6
Bio/Tools/Primer3.pm 84.3 65.3 n/a 82.3 100.0 0.0 79.5
Bio/Tools/Promoterwise.pm 92.9 60.0 66.6 100.0 50.0 0.0 83.9
Bio/Tools/PrositeScan.pm 94.5 68.1 66.6 92.8 75.0 0.0 88.0
Bio/Tools/Pseudowise.pm 85.5 75.0 20.0 88.2 100.0 0.0 81.6
Bio/Tools/QRNA.pm 91.9 87.8 60.0 100.0 100.0 0.0 90.6
Bio/Tools/RandomDistFunctions.pm 84.0 28.5 33.3 100.0 75.0 0.0 68.2
Bio/Tools/RepeatMasker.pm 94.2 70.0 n/a 100.0 100.0 0.0 90.3
Bio/Tools/Run/GenericParameters.pm 100.0 n/a n/a 100.0 100.0 0.0 100.0
Bio/Tools/Run/ParametersI.pm 60.0 n/a n/a 50.0 100.0 0.0 62.5
Bio/Tools/Seg.pm 100.0 100.0 n/a 100.0 100.0 0.0 100.0
Bio/Tools/SeqPattern.pm 71.3 54.1 29.4 94.4 42.8 0.0 66.4
Bio/Tools/SeqStats.pm 88.4 74.3 60.0 94.1 100.0 0.0 85.4
Bio/Tools/SeqWords.pm 81.3 42.8 33.3 100.0 100.0 0.0 67.5
Bio/Tools/SiRNA.pm 92.1 56.6 44.4 100.0 100.0 0.0 79.2
Bio/Tools/SiRNA/Ruleset/tuschl.pm 87.5 75.0 0.0 88.8 50.0 0.0 81.4
Bio/Tools/Sigcleave.pm 99.1 77.7 71.4 100.0 14.2 0.0 89.7
Bio/Tools/Signalp.pm 95.3 86.3 66.6 100.0 100.0 0.0 93.0
Bio/Tools/Signalp/ExtendedSignalp.pm 98.4 92.2 81.8 100.0 100.0 0.0 95.5
Bio/Tools/Sim4/Exon.pm 89.7 59.0 33.3 100.0 100.0 0.0 77.3
Bio/Tools/Sim4/Results.pm 83.1 56.2 33.3 90.0 100.0 0.0 75.4
Bio/Tools/Spidey/Exon.pm 94.2 62.5 33.3 100.0 100.0 0.0 85.5
Bio/Tools/Spidey/Results.pm 91.3 82.6 66.6 93.3 100.0 0.0 89.4
Bio/Tools/TandemRepeatsFinder.pm 98.2 88.8 n/a 100.0 100.0 0.0 96.6
Bio/Tools/TargetP.pm 95.1 70.0 50.0 94.1 20.0 0.0 82.3
Bio/Tools/Tmhmm.pm 100.0 100.0 n/a 100.0 100.0 0.0 100.0
Bio/Tools/pICalculator.pm 91.8 55.0 37.5 100.0 71.4 0.0 80.7
Bio/Tools/tRNAscanSE.pm 88.4 79.1 0.0 81.8 100.0 0.0 83.3
Bio/Tree/AlleleNode.pm 85.3 75.0 66.6 81.2 100.0 0.0 85.1
Bio/Tree/Compatible.pm 88.0 42.8 0.0 100.0 100.0 0.0 81.9
Bio/Tree/DistanceFactory.pm 39.2 27.3 15.3 75.0 100.0 0.0 35.7
Bio/Tree/Node.pm 72.5 61.4 55.7 96.5 95.6 1.1 69.5
Bio/Tree/NodeI.pm 50.0 57.1 100.0 30.7 100.0 0.1 56.9
Bio/Tree/NodeNHX.pm 73.6 81.2 44.4 100.0 100.0 0.0 75.0
Bio/Tree/RandomFactory.pm 69.7 57.1 35.4 82.3 66.6 0.0 64.3
Bio/Tree/Statistics.pm 86.9 76.1 43.0 92.0 100.0 0.0 79.2
Bio/Tree/Tree.pm 85.5 65.3 51.2 90.4 94.7 0.1 77.7
Bio/Tree/TreeFunctionsI.pm 57.5 46.5 38.8 64.0 100.0 0.1 53.7
Bio/Tree/TreeI.pm 40.0 50.0 66.6 23.5 100.0 0.0 50.0
Bio/TreeIO.pm 74.2 50.0 28.5 72.7 36.3 0.1 65.5
Bio/TreeIO/NewickParser.pm 95.0 81.6 83.3 100.0 0.0 0.4 89.8
Bio/TreeIO/TreeEventBuilder.pm 95.7 76.3 66.6 100.0 100.0 0.4 90.5
Bio/TreeIO/lintree.pm 91.0 80.0 33.3 100.0 100.0 0.0 87.0
Bio/TreeIO/newick.pm 77.3 57.1 55.5 71.4 83.3 0.0 69.3
Bio/TreeIO/nexus.pm 49.2 21.0 9.5 75.0 80.0 0.0 39.2
Bio/TreeIO/nhx.pm 100.0 100.0 50.0 100.0 n/a 0.0 97.1
Bio/TreeIO/svggraph.pm 96.9 50.0 52.9 92.8 100.0 0.0 86.5
Bio/TreeIO/tabtree.pm 29.6 0.0 0.0 50.0 100.0 0.0 26.4
Bio/Variation/AAChange.pm 85.8 62.1 40.0 100.0 100.0 0.0 64.5
Bio/Variation/AAReverseMutate.pm 94.8 72.2 66.6 100.0 100.0 0.0 88.2
Bio/Variation/Allele.pm 57.4 41.6 33.3 60.0 100.0 0.0 53.3
Bio/Variation/DNAMutation.pm 84.4 68.6 50.0 88.8 100.0 0.0 73.4
Bio/Variation/IO.pm 66.6 40.0 50.0 55.5 100.0 0.0 62.9
Bio/Variation/IO/flat.pm 95.9 78.0 80.9 100.0 100.0 0.0 89.0
Bio/Variation/RNAChange.pm 85.8 71.6 49.3 86.6 100.0 0.0 74.0
Bio/Variation/SNP.pm 100.0 83.3 n/a 100.0 100.0 0.0 96.7
Bio/Variation/SeqDiff.pm 56.2 54.1 3.3 87.1 100.0 0.0 56.5
Bio/Variation/VariantI.pm 81.8 75.0 62.9 84.0 100.0 0.0 79.5
Bio/WebAgent.pm 61.1 20.0 0.0 62.5 100.0 0.0 53.1
blib/lib/Bio/AlignIO/nexml.pm 28.3 0.0 0.0 45.4 100.0 0.0 30.3
blib/lib/Bio/DB/HIV.pm 37.9 23.8 0.0 68.0 100.0 0.0 35.1
blib/lib/Bio/DB/HIV/HIVAnnotProcessor.pm 86.1 54.5 33.3 100.0 100.0 0.0 75.3
blib/lib/Bio/DB/HIV/HIVQueryHelper.pm 79.8 60.3 32.6 84.0 0.0 1.4 69.4
blib/lib/Bio/DB/Query/HIVQuery.pm 55.0 41.8 31.4 71.4 78.9 0.0 51.8
blib/lib/Bio/Nexml/Factory.pm 11.2 0.7 0.0 50.0 90.9 0.0 11.0
blib/lib/Bio/NexmlIO.pm 12.2 0.0 0.0 33.3 100.0 0.0 16.1
blib/lib/Bio/Root/Build.pm 9.3 1.3 0.0 30.4 100.0 0.3 12.8
blib/lib/Bio/SeqIO/nexml.pm 33.8 0.0 0.0 53.8 100.0 0.0 35.5
blib/lib/Bio/Tools/SeqPattern/Backtranslate.pm 99.2 92.8 33.3 100.0 n/a 0.1 95.0
blib/lib/Bio/TreeIO/nexml.pm 36.2 0.0 0.0 53.8 100.0 0.0 38.1