|
jalview.io.DataSourceType
jalview.io.DataSourceType
|
1.0100%
|
|
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jalview.ws.WSClient
jalview.ws.WSClient
|
1.0100%
|
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|
jalview.datamodel.ResidueCount.SymbolCounts
jalview.datamodel.ResidueCount.SymbolCounts
|
1.0100%
|
|
|
jalview.jbgui.GAlignmentPanel
jalview.jbgui.GAlignmentPanel
|
0.9494%
|
|
|
jalview.datamodel.Profiles
jalview.datamodel.Profiles
|
0.866666786.7%
|
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|
jalview.analysis.Conservation
jalview.analysis.Conservation
|
0.861575286.2%
|
|
|
jalview.util.LinkedIdentityHashSet
jalview.util.LinkedIdentityHashSet
|
0.7727272577.3%
|
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jalview.workers.SecondaryStructureConsensusThread
jalview.workers.SecondaryStructureConsensusThread
|
0.7575%
|
|
|
jalview.workers.ConsensusThread
jalview.workers.ConsensusThread
|
0.717171771.7%
|
|
|
jalview.gui.FeatureRenderer
jalview.gui.FeatureRenderer
|
0.7142857371.4%
|
|
|
jalview.util.LinkedIdentityHashSet.IdentityWrapper
jalview.util.LinkedIdentityHashSet.IdentityWrapper
|
0.7142857371.4%
|
|
|
jalview.datamodel.Profile
jalview.datamodel.Profile
|
0.672131167.2%
|
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jalview.util.ParseHtmlBodyAndLinks
jalview.util.ParseHtmlBodyAndLinks
|
0.594202959.4%
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|
jalview.jbgui.GAlignFrame
jalview.jbgui.GAlignFrame
|
0.5731370457.3%
|
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jalview.workers.ConservationThread
jalview.workers.ConservationThread
|
0.5666666656.7%
|
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|
jalview.gui.JalviewChangeSupport
jalview.gui.JalviewChangeSupport
|
0.550%
|
|
|
jalview.viewmodel.ViewportProperties
jalview.viewmodel.ViewportProperties
|
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%
|
|
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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.ws.jws2.MsaWSClient
jalview.ws.jws2.MsaWSClient
|
0.4429530244.3%
|
|
|
jalview.io.FileLoader
jalview.io.FileLoader
|
0.4414715844.1%
|
|
|
jalview.gui.ColourMenuHelper
jalview.gui.ColourMenuHelper
|
0.4322033843.2%
|
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jalview.datamodel.HiddenCursorPosition
jalview.datamodel.HiddenCursorPosition
|
0.4285714342.9%
|
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jalview.util.ShortcutKeyMaskExWrapper11
jalview.util.ShortcutKeyMaskExWrapper11
|
0.4166666641.7%
|
|
|
jalview.gui.SequenceRenderer
jalview.gui.SequenceRenderer
|
0.4134615441.3%
|
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jalview.io.FileFormats
jalview.io.FileFormats
|
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%
|
|
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jalview.workers.AlignCalcManager
jalview.workers.AlignCalcManager
|
0.3928571339.3%
|
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jalview.datamodel.ResidueCount
jalview.datamodel.ResidueCount
|
0.3745454537.5%
|
|
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jalview.io.AlignFile
jalview.io.AlignFile
|
0.36986337%
|
|
|
jalview.ws.jws2.Jws2Discoverer
jalview.ws.jws2.Jws2Discoverer
|
0.3623762436.2%
|
|
|
jalview.io.FastaFile
jalview.io.FastaFile
|
0.3603603536%
|
|
|
jalview.renderer.ScaleRenderer
jalview.renderer.ScaleRenderer
|
0.3636%
|
|
|
jalview.util.MessageManager
jalview.util.MessageManager
|
0.3571428735.7%
|
|
|
jalview.schemes.ResidueColourScheme
jalview.schemes.ResidueColourScheme
|
0.3571428735.7%
|
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|
jalview.util.Comparison
jalview.util.Comparison
|
0.350393735%
|
|
|
jalview.viewmodel.styles.ViewStyle
jalview.viewmodel.styles.ViewStyle
|
0.3369565333.7%
|
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jalview.analysis.AAFrequency
jalview.analysis.AAFrequency
|
0.3360655633.6%
|
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jalview.ws.rest.RestServiceDescription
jalview.ws.rest.RestServiceDescription
|
0.31531.5%
|
|
|
jalview.gui.AlignmentPanel
jalview.gui.AlignmentPanel
|
0.3003533530%
|
|
|
jalview.ws.jws2.SequenceAnnotationWSClient
jalview.ws.jws2.SequenceAnnotationWSClient
|
0.2903225729%
|
|
|
jalview.renderer.ResidueColourFinder
jalview.renderer.ResidueColourFinder
|
0.285714328.6%
|
|
|
jalview.schemes.JalviewColourScheme
jalview.schemes.JalviewColourScheme
|
0.285714328.6%
|
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|
jalview.viewmodel.ViewportRanges
jalview.viewmodel.ViewportRanges
|
0.2838283828.4%
|
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jalview.io.IdentifyFile
jalview.io.IdentifyFile
|
0.279365127.9%
|
|
|
jalview.gui.IdCanvas
jalview.gui.IdCanvas
|
0.273684227.4%
|
|
|
jalview.ws.jws2.JabaPreset
jalview.ws.jws2.JabaPreset
|
0.2727272827.3%
|
|
|
jalview.gui.AlignViewport
jalview.gui.AlignViewport
|
0.2660944226.6%
|
|
|
jalview.gui.JvSwingUtils
jalview.gui.JvSwingUtils
|
0.258503425.9%
|
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jalview.ws.jws2.jabaws2.Jws2Instance
jalview.ws.jws2.jabaws2.Jws2Instance
|
0.2528735725.3%
|
|
|
jalview.io.FileParse
jalview.io.FileParse
|
0.250696425.1%
|
|
|
jalview.gui.IdwidthAdjuster
jalview.gui.IdwidthAdjuster
|
0.2525%
|
|
|
jalview.ws.uimodel.AlignAnalysisUIText
jalview.ws.uimodel.AlignAnalysisUIText
|
0.2439024424.4%
|
|
|
jalview.ws.rest.params.Alignment
jalview.ws.rest.params.Alignment
|
0.2435897424.4%
|
|
|
jalview.viewmodel.AlignmentViewport
jalview.viewmodel.AlignmentViewport
|
0.2344632723.4%
|
|
|
jalview.ws.jws2.Jws2Client
jalview.ws.jws2.Jws2Client
|
0.2228915722.3%
|
|
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jalview.util.QuickSort
jalview.util.QuickSort
|
0.2135922321.4%
|
|
|
jalview.ws.rest.InputType
jalview.ws.rest.InputType
|
0.2056074720.6%
|
|
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jalview.gui.AnnotationLabels
jalview.gui.AnnotationLabels
|
0.1889502718.9%
|
|
|
jalview.schemes.IdColourScheme
jalview.schemes.IdColourScheme
|
0.1739130517.4%
|
|
|
jalview.analysis.AnnotationSorter
jalview.analysis.AnnotationSorter
|
0.1674876816.7%
|
|
|
jalview.analysis.scoremodels.ScoreModels
jalview.analysis.scoremodels.ScoreModels
|
0.1636363616.4%
|
|
|
jalview.ws.jws1.WS1Client
jalview.ws.jws1.WS1Client
|
0.1616%
|
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jalview.gui.ScalePanel
jalview.gui.ScalePanel
|
0.1498127315%
|
|
|
jalview.util.Format
jalview.util.Format
|
0.1490683314.9%
|
|
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jalview.schemes.TCoffeeColourScheme
jalview.schemes.TCoffeeColourScheme
|
0.1475409914.8%
|
|
|
jalview.datamodel.Alignment
jalview.datamodel.Alignment
|
0.1447124314.5%
|
|
|
jalview.gui.Desktop.MyDesktopPane
jalview.gui.Desktop.MyDesktopPane
|
0.1428571514.3%
|
|
|
jalview.gui.PaintRefresher
jalview.gui.PaintRefresher
|
0.1408450814.1%
|
|
|
jalview.ws.rest.params.SeqGroupIndexVector
jalview.ws.rest.params.SeqGroupIndexVector
|
0.12408759412.4%
|
|
|
jalview.util.StringUtils
jalview.util.StringUtils
|
0.1230769212.3%
|
|
|
jalview.io.FormatAdapter
jalview.io.FormatAdapter
|
0.1212%
|
|
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jalview.schemes.Blosum62ColourScheme
jalview.schemes.Blosum62ColourScheme
|
0.1176470611.8%
|
|
|
jalview.ws.rest.RestClient
jalview.ws.rest.RestClient
|
0.11538461611.5%
|
|
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jalview.datamodel.Annotation
jalview.datamodel.Annotation
|
0.11428571511.4%
|
|
|
jalview.gui.Desktop.MyDesktopManager
jalview.gui.Desktop.MyDesktopManager
|
0.1111111111.1%
|
|
|
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.gui.AlignFrame
jalview.gui.AlignFrame
|
0.1071303110.7%
|
|
|
jalview.ws.rest.params.AnnotationFile
jalview.ws.rest.params.AnnotationFile
|
0.10256410410.3%
|
|
|
jalview.io.AppletFormatAdapter
jalview.io.AppletFormatAdapter
|
0.0993788849.9%
|
|
|
jalview.datamodel.Sequence
jalview.datamodel.Sequence
|
0.0986159159.9%
|
|
|
jalview.util.ColorUtils
jalview.util.ColorUtils
|
0.096774199.7%
|
|
|
jalview.workers.AlignCalcWorker
jalview.workers.AlignCalcWorker
|
0.09523819.5%
|
|
|
jalview.gui.SeqCanvas
jalview.gui.SeqCanvas
|
0.0911823669.1%
|
|
|
jalview.datamodel.AlignmentAnnotation
jalview.datamodel.AlignmentAnnotation
|
0.089552249%
|
|
|
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.gui.Desktop
jalview.gui.Desktop
|
0.070615037.1%
|
|
|
jalview.schemes.ColourSchemes
jalview.schemes.ColourSchemes
|
0.070175447%
|
|
|
jalview.analysis.scoremodels.ScoreMatrix
jalview.analysis.scoremodels.ScoreMatrix
|
0.069958857%
|
|
|
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.analysis.CrossRef
jalview.analysis.CrossRef
|
0.063524596.4%
|
|
|
ext.vamsas.ServiceHandle
ext.vamsas.ServiceHandle
|
0.061224496.1%
|
|
|
jalview.gui.AnnotationPanel
jalview.gui.AnnotationPanel
|
0.059873956%
|
|
|
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.ColumnSelection.IntList
jalview.datamodel.ColumnSelection.IntList
|
0.0560747655.6%
|
|
|
jalview.renderer.ResidueShader
jalview.renderer.ResidueShader
|
0.054878055.5%
|
|
|
jalview.ws.jws1.Discoverer
jalview.ws.jws1.Discoverer
|
0.0512820525.1%
|
|
|
jalview.analysis.GeneticCodes
jalview.analysis.GeneticCodes
|
0.0496894425%
|
|
|
jalview.bin.Cache
jalview.bin.Cache
|
0.0482093654.8%
|
|
|
jalview.datamodel.SecondaryStructureCount
jalview.datamodel.SecondaryStructureCount
|
0.0468754.7%
|
|
|
jalview.ws.jws2.JabaParamStore
jalview.ws.jws2.JabaParamStore
|
0.0416666684.2%
|
|
|
jalview.structure.StructureSelectionManager
jalview.structure.StructureSelectionManager
|
0.0339393953.4%
|
|
|
jalview.ws.jws1.JPredClient
jalview.ws.jws1.JPredClient
|
0.0310559013.1%
|
|
|
jalview.datamodel.HiddenSequences
jalview.datamodel.HiddenSequences
|
0.027397262.7%
|
|
|
jalview.util.DBRefUtils
jalview.util.DBRefUtils
|
0.0241691842.4%
|
|
|
jalview.ws.jws2.JabaWsServerQuery
jalview.ws.jws2.JabaWsServerQuery
|
0.0208333342.1%
|
|
|
jalview.datamodel.HiddenColumns
jalview.datamodel.HiddenColumns
|
0.0188679251.9%
|
|
|
jalview.schemes.ClustalxColourScheme
jalview.schemes.ClustalxColourScheme
|
0.0169491531.7%
|
|
|
jalview.analysis.AlignmentUtils
jalview.analysis.AlignmentUtils
|
0.016414971.6%
|
|
|
jalview.datamodel.HiddenColumnsCursor
jalview.datamodel.HiddenColumnsCursor
|
0.0156251.6%
|
|
|
jalview.controller.AlignViewController
jalview.controller.AlignViewController
|
0.0136518771.4%
|
|
|
jalview.datamodel.SearchResults
jalview.datamodel.SearchResults
|
0.0128205131.3%
|
|
|
jalview.analysis.AlignSeq
jalview.analysis.AlignSeq
|
0.0128205131.3%
|
|
|
jalview.datamodel.features.SequenceFeatures
jalview.datamodel.features.SequenceFeatures
|
0.0127388541.3%
|
|
|
jalview.gui.SeqPanel
jalview.gui.SeqPanel
|
0.0125082291.3%
|
|
|
jalview.io.SequenceAnnotationReport
jalview.io.SequenceAnnotationReport
|
0.0122699381.2%
|
|
|
jalview.datamodel.ColumnSelection
jalview.datamodel.ColumnSelection
|
0.0103092781%
|
|
|
jalview.gui.SequenceFetcher
jalview.gui.SequenceFetcher
|
0.0089285720.9%
|
|
|
jalview.bin.Jalview
jalview.bin.Jalview
|
0.0081227440.8%
|
|
|
jalview.renderer.seqfeatures.FeatureRenderer
jalview.renderer.seqfeatures.FeatureRenderer
|
0.007547170.8%
|
|
|
jalview.gui.QuitHandler
jalview.gui.QuitHandler
|
0.00722021660.7%
|
|
|
jalview.datamodel.SequenceGroup
jalview.datamodel.SequenceGroup
|
0.00561797760.6%
|
|
|
jalview.renderer.AnnotationRenderer
jalview.renderer.AnnotationRenderer
|
0.00357142860.4%
|
|
