|
jalview.io.DataSourceType
jalview.io.DataSourceType
|
1.0100%
|
|
|
jalview.io.gff.Gff2Helper
jalview.io.gff.Gff2Helper
|
1.0100%
|
|
|
jalview.datamodel.SequenceDummy
jalview.datamodel.SequenceDummy
|
1.0100%
|
|
|
jalview.datamodel.ResidueCount.SymbolCounts
jalview.datamodel.ResidueCount.SymbolCounts
|
1.0100%
|
|
|
jalview.jbgui.GAlignmentPanel
jalview.jbgui.GAlignmentPanel
|
0.9494%
|
|
|
jalview.workers.ComplementConsensusThread
jalview.workers.ComplementConsensusThread
|
0.916666791.7%
|
|
|
jalview.analysis.Conservation
jalview.analysis.Conservation
|
0.8842364588.4%
|
|
|
jalview.util.LinkedIdentityHashSet
jalview.util.LinkedIdentityHashSet
|
0.7727272577.3%
|
|
|
jalview.io.gff.GffHelperFactory
jalview.io.gff.GffHelperFactory
|
0.7575%
|
|
|
jalview.datamodel.Profiles
jalview.datamodel.Profiles
|
0.7333333573.3%
|
|
|
jalview.gui.FeatureRenderer
jalview.gui.FeatureRenderer
|
0.7142857371.4%
|
|
|
jalview.util.LinkedIdentityHashSet.IdentityWrapper
jalview.util.LinkedIdentityHashSet.IdentityWrapper
|
0.7142857371.4%
|
|
|
jalview.analysis.CodingUtils
jalview.analysis.CodingUtils
|
0.7068965470.7%
|
|
|
jalview.workers.ConsensusThread
jalview.workers.ConsensusThread
|
0.696969769.7%
|
|
|
jalview.io.gff.ExonerateHelper
jalview.io.gff.ExonerateHelper
|
0.6190476461.9%
|
|
|
jalview.jbgui.GAlignFrame
jalview.jbgui.GAlignFrame
|
0.581220758.1%
|
|
|
jalview.workers.ConservationThread
jalview.workers.ConservationThread
|
0.568965556.9%
|
|
|
jalview.viewmodel.ViewportProperties
jalview.viewmodel.ViewportProperties
|
0.550%
|
|
|
jalview.io.gff.SequenceOntologyFactory
jalview.io.gff.SequenceOntologyFactory
|
0.550%
|
|
|
jalview.schemes.TaylorColourScheme
jalview.schemes.TaylorColourScheme
|
0.550%
|
|
|
jalview.schemes.FlowerColourScheme
jalview.schemes.FlowerColourScheme
|
0.550%
|
|
|
jalview.schemes.ZappoColourScheme
jalview.schemes.ZappoColourScheme
|
0.550%
|
|
|
jalview.schemes.NucleotideAmbiguityColourScheme
jalview.schemes.NucleotideAmbiguityColourScheme
|
0.550%
|
|
|
jalview.schemes.PurinePyrimidineColourScheme
jalview.schemes.PurinePyrimidineColourScheme
|
0.550%
|
|
|
jalview.schemes.NucleotideColourScheme
jalview.schemes.NucleotideColourScheme
|
0.550%
|
|
|
jalview.schemes.BlossomColourScheme
jalview.schemes.BlossomColourScheme
|
0.550%
|
|
|
jalview.schemes.SunsetColourScheme
jalview.schemes.SunsetColourScheme
|
0.550%
|
|
|
jalview.schemes.OceanColourScheme
jalview.schemes.OceanColourScheme
|
0.550%
|
|
|
jalview.analysis.SequenceIdMatcher.SeqIdName
jalview.analysis.SequenceIdMatcher.SeqIdName
|
0.550%
|
|
|
jalview.io.gff.GffHelperBase
jalview.io.gff.GffHelperBase
|
0.4834123348.3%
|
|
|
jalview.util.MessageManager
jalview.util.MessageManager
|
0.4761904847.6%
|
|
|
jalview.analysis.SequenceIdMatcher
jalview.analysis.SequenceIdMatcher
|
0.447368444.7%
|
|
|
jalview.io.AlignFile
jalview.io.AlignFile
|
0.4452054844.5%
|
|
|
jalview.io.FileLoader
jalview.io.FileLoader
|
0.434782643.5%
|
|
|
jalview.gui.ColourMenuHelper
jalview.gui.ColourMenuHelper
|
0.4322033843.2%
|
|
|
jalview.util.QuickSort.IntComparator
jalview.util.QuickSort.IntComparator
|
0.4285714342.9%
|
|
|
jalview.datamodel.HiddenCursorPosition
jalview.datamodel.HiddenCursorPosition
|
0.4285714342.9%
|
|
|
jalview.datamodel.features.FeatureAttributes.AttributeData
jalview.datamodel.features.FeatureAttributes.AttributeData
|
0.4255319242.6%
|
|
|
jalview.util.ShortcutKeyMaskExWrapper11
jalview.util.ShortcutKeyMaskExWrapper11
|
0.4166666641.7%
|
|
|
jalview.analysis.AAFrequency
jalview.analysis.AAFrequency
|
0.400843940.1%
|
|
|
jalview.datamodel.MappingType
jalview.datamodel.MappingType
|
0.440%
|
|
|
jalview.schemes.HydrophobicColourScheme
jalview.schemes.HydrophobicColourScheme
|
0.440%
|
|
|
jalview.schemes.HelixColourScheme
jalview.schemes.HelixColourScheme
|
0.440%
|
|
|
jalview.schemes.TurnColourScheme
jalview.schemes.TurnColourScheme
|
0.440%
|
|
|
jalview.schemes.StrandColourScheme
jalview.schemes.StrandColourScheme
|
0.440%
|
|
|
jalview.schemes.BuriedColourScheme
jalview.schemes.BuriedColourScheme
|
0.440%
|
|
|
jalview.workers.AlignCalcManager
jalview.workers.AlignCalcManager
|
0.380952438.1%
|
|
|
jalview.datamodel.Profile
jalview.datamodel.Profile
|
0.37537.5%
|
|
|
jalview.datamodel.ResidueCount
jalview.datamodel.ResidueCount
|
0.3745454537.5%
|
|
|
jalview.datamodel.AlignedCodonFrame
jalview.datamodel.AlignedCodonFrame
|
0.3617747436.2%
|
|
|
jalview.io.FileFormats
jalview.io.FileFormats
|
0.3636%
|
|
|
jalview.schemes.ResidueColourScheme
jalview.schemes.ResidueColourScheme
|
0.3571428735.7%
|
|
|
jalview.io.FastaFile
jalview.io.FastaFile
|
0.3423423534.2%
|
|
|
jalview.util.Comparison
jalview.util.Comparison
|
0.3228346432.3%
|
|
|
jalview.viewmodel.styles.ViewStyle
jalview.viewmodel.styles.ViewStyle
|
0.3007812530.1%
|
|
|
jalview.schemes.JalviewColourScheme
jalview.schemes.JalviewColourScheme
|
0.285714328.6%
|
|
|
jalview.gui.AlignViewport
jalview.gui.AlignViewport
|
0.2694063826.9%
|
|
|
jalview.ext.so.SequenceOntology
jalview.ext.so.SequenceOntology
|
0.2687526.9%
|
|
|
jalview.io.FileParse
jalview.io.FileParse
|
0.256267425.6%
|
|
|
jalview.gui.JalviewChangeSupport
jalview.gui.JalviewChangeSupport
|
0.2525%
|
|
|
jalview.datamodel.features.FeatureAttributes
jalview.datamodel.features.FeatureAttributes
|
0.2403100724%
|
|
|
jalview.datamodel.SequenceCursor
jalview.datamodel.SequenceCursor
|
0.2333333323.3%
|
|
|
jalview.io.FeaturesFile
jalview.io.FeaturesFile
|
0.2270029622.7%
|
|
|
jalview.gui.AlignmentPanel
jalview.gui.AlignmentPanel
|
0.2226148422.3%
|
|
|
jalview.datamodel.Sequence
jalview.datamodel.Sequence
|
0.2162629821.6%
|
|
|
jalview.viewmodel.AlignmentViewport
jalview.viewmodel.AlignmentViewport
|
0.2116843821.2%
|
|
|
jalview.datamodel.features.FeatureStore
jalview.datamodel.features.FeatureStore
|
0.2024169120.2%
|
|
|
jalview.io.gff.InterProScanHelper
jalview.io.gff.InterProScanHelper
|
0.220%
|
|
|
jalview.io.IdentifyFile
jalview.io.IdentifyFile
|
0.1873015918.7%
|
|
|
jalview.datamodel.features.SequenceFeatures
jalview.datamodel.features.SequenceFeatures
|
0.1847133818.5%
|
|
|
jalview.util.MapList
jalview.util.MapList
|
0.1838006218.4%
|
|
|
jalview.datamodel.Alignment
jalview.datamodel.Alignment
|
0.1824953418.2%
|
|
|
jalview.util.QuickSort
jalview.util.QuickSort
|
0.1779935217.8%
|
|
|
jalview.schemes.IdColourScheme
jalview.schemes.IdColourScheme
|
0.1739130517.4%
|
|
|
jalview.analysis.AnnotationSorter
jalview.analysis.AnnotationSorter
|
0.1674876816.7%
|
|
|
jalview.datamodel.SequenceFeature
jalview.datamodel.SequenceFeature
|
0.1582733815.8%
|
|
|
jalview.util.Format
jalview.util.Format
|
0.1490683314.9%
|
|
|
jalview.schemes.TCoffeeColourScheme
jalview.schemes.TCoffeeColourScheme
|
0.1475409914.8%
|
|
|
jalview.gui.Desktop.MyDesktopPane
jalview.gui.Desktop.MyDesktopPane
|
0.1428571514.3%
|
|
|
jalview.gui.PaintRefresher
jalview.gui.PaintRefresher
|
0.1408450814.1%
|
|
|
jalview.viewmodel.ViewportRanges
jalview.viewmodel.ViewportRanges
|
0.1287128812.9%
|
|
|
jalview.io.FormatAdapter
jalview.io.FormatAdapter
|
0.1212%
|
|
|
jalview.schemes.Blosum62ColourScheme
jalview.schemes.Blosum62ColourScheme
|
0.1176470611.8%
|
|
|
jalview.gui.JvSwingUtils
jalview.gui.JvSwingUtils
|
0.1156462611.6%
|
|
|
jalview.analysis.scoremodels.ScoreModels
jalview.analysis.scoremodels.ScoreModels
|
0.11538461611.5%
|
|
|
jalview.datamodel.Annotation
jalview.datamodel.Annotation
|
0.11428571511.4%
|
|
|
jalview.util.ShortcutKeyMaskExWrapper
jalview.util.ShortcutKeyMaskExWrapper
|
0.1111111111.1%
|
|
|
jalview.schemes.ColourSchemeProperty
jalview.schemes.ColourSchemeProperty
|
0.1111111111.1%
|
|
|
jalview.io.FileFormat
jalview.io.FileFormat
|
0.1085271310.9%
|
|
|
jalview.util.StringUtils
jalview.util.StringUtils
|
0.10153846410.2%
|
|
|
jalview.io.AppletFormatAdapter
jalview.io.AppletFormatAdapter
|
0.0993788849.9%
|
|
|
jalview.workers.AlignCalcWorker
jalview.workers.AlignCalcWorker
|
0.09523819.5%
|
|
|
jalview.util.MappingUtils
jalview.util.MappingUtils
|
0.0948275859.5%
|
|
|
jalview.util.ColorUtils
jalview.util.ColorUtils
|
0.0860215058.6%
|
|
|
jalview.gui.Console
jalview.gui.Console
|
0.082568818.3%
|
|
|
jalview.schemes.RNAHelicesColour
jalview.schemes.RNAHelicesColour
|
0.082191788.2%
|
|
|
jalview.gui.ProgressBar
jalview.gui.ProgressBar
|
0.081300818.1%
|
|
|
jalview.datamodel.AlignmentAnnotation
jalview.datamodel.AlignmentAnnotation
|
0.0757.5%
|
|
|
jalview.gui.AlignFrame
jalview.gui.AlignFrame
|
0.074883567.5%
|
|
|
jalview.analysis.AlignmentUtils
jalview.analysis.AlignmentUtils
|
0.070906437.1%
|
|
|
jalview.schemes.ColourSchemes
jalview.schemes.ColourSchemes
|
0.070175447%
|
|
|
jalview.gui.IdPanel
jalview.gui.IdPanel
|
0.067264576.7%
|
|
|
jalview.schemes.PIDColourScheme
jalview.schemes.PIDColourScheme
|
0.066666676.7%
|
|
|
jalview.log.JLogger
jalview.log.JLogger
|
0.065934076.6%
|
|
|
jalview.gui.IdwidthAdjuster
jalview.gui.IdwidthAdjuster
|
0.0657894766.6%
|
|
|
jalview.renderer.ResidueShader
jalview.renderer.ResidueShader
|
0.064285726.4%
|
|
|
jalview.analysis.CrossRef
jalview.analysis.CrossRef
|
0.063524596.4%
|
|
|
jalview.datamodel.AlignedCodonFrame.SequenceToSequenceMapping
jalview.datamodel.AlignedCodonFrame.SequenceToSequenceMapping
|
0.06256.2%
|
|
|
jalview.analysis.scoremodels.ScoreMatrix
jalview.analysis.scoremodels.ScoreMatrix
|
0.0617283966.2%
|
|
|
jalview.gui.ViewSelectionMenu
jalview.gui.ViewSelectionMenu
|
0.059405945.9%
|
|
|
jalview.bin.Console
jalview.bin.Console
|
0.05911335.9%
|
|
|
jalview.util.Platform
jalview.util.Platform
|
0.0566037745.7%
|
|
|
jalview.datamodel.Mapping
jalview.datamodel.Mapping
|
0.0519480525.2%
|
|
|
jalview.analysis.GeneticCodes
jalview.analysis.GeneticCodes
|
0.0496894425%
|
|
|
jalview.bin.Cache
jalview.bin.Cache
|
0.0482093654.8%
|
|
|
jalview.structure.StructureSelectionManager
jalview.structure.StructureSelectionManager
|
0.0466666674.7%
|
|
|
jalview.gui.AnnotationPanel
jalview.gui.AnnotationPanel
|
0.044117654.4%
|
|
|
jalview.datamodel.ColumnSelection.IntList
jalview.datamodel.ColumnSelection.IntList
|
0.0373831763.7%
|
|
|
jalview.gui.Desktop
jalview.gui.Desktop
|
0.0307517093.1%
|
|
|
jalview.datamodel.HiddenSequences
jalview.datamodel.HiddenSequences
|
0.027397262.7%
|
|
|
jalview.gui.IdCanvas
jalview.gui.IdCanvas
|
0.0245614032.5%
|
|
|
jalview.util.DBRefUtils
jalview.util.DBRefUtils
|
0.0241691842.4%
|
|
|
jalview.renderer.ResidueColourFinder
jalview.renderer.ResidueColourFinder
|
0.0238095242.4%
|
|
|
jalview.gui.ScalePanel
jalview.gui.ScalePanel
|
0.02343752.3%
|
|
|
jalview.schemes.ClustalxColourScheme
jalview.schemes.ClustalxColourScheme
|
0.0169491531.7%
|
|
|
jalview.datamodel.HiddenColumnsCursor
jalview.datamodel.HiddenColumnsCursor
|
0.0156251.6%
|
|
|
jalview.gui.SequenceRenderer
jalview.gui.SequenceRenderer
|
0.0144230771.4%
|
|
|
jalview.controller.AlignViewController
jalview.controller.AlignViewController
|
0.0136518771.4%
|
|
|
jalview.analysis.AlignSeq
jalview.analysis.AlignSeq
|
0.0128205131.3%
|
|
|
jalview.gui.SeqPanel
jalview.gui.SeqPanel
|
0.0125412541.3%
|
|
|
jalview.io.SequenceAnnotationReport
jalview.io.SequenceAnnotationReport
|
0.0122699381.2%
|
|
|
jalview.gui.AnnotationLabels
jalview.gui.AnnotationLabels
|
0.01150747951.2%
|
|
|
jalview.gui.SeqCanvas
jalview.gui.SeqCanvas
|
0.0080160320.8%
|
|
|
jalview.renderer.seqfeatures.FeatureRenderer
jalview.renderer.seqfeatures.FeatureRenderer
|
0.007547170.8%
|
|
|
jalview.gui.QuitHandler
jalview.gui.QuitHandler
|
0.00722021660.7%
|
|
|
jalview.datamodel.HiddenColumns
jalview.datamodel.HiddenColumns
|
0.0070754720.7%
|
|
|
jalview.bin.Jalview
jalview.bin.Jalview
|
0.00451263550.5%
|
|
|
jalview.renderer.AnnotationRenderer
jalview.renderer.AnnotationRenderer
|
0.00362318850.4%
|
|
|
jalview.datamodel.ColumnSelection
jalview.datamodel.ColumnSelection
|
0.00343642620.3%
|
|
