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jalview.io.DataSourceType
jalview.io.DataSourceType
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1.0100%
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jalview.xml.binding.jalview.SequenceType
jalview.xml.binding.jalview.SequenceType
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1.0100%
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jalview.xml.binding.jalview.MapListType
jalview.xml.binding.jalview.MapListType
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1.0100%
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jalview.xml.binding.jalview.MapListType.MapListFrom
jalview.xml.binding.jalview.MapListType.MapListFrom
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1.0100%
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jalview.xml.binding.jalview.MapListType.MapListTo
jalview.xml.binding.jalview.MapListType.MapListTo
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1.0100%
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jalview.renderer.ScaleRenderer.ScaleMark
jalview.renderer.ScaleRenderer.ScaleMark
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1.0100%
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jalview.ws.WSClient
jalview.ws.WSClient
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1.0100%
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jalview.project.Jalview2XML.JvAnnotRow
jalview.project.Jalview2XML.JvAnnotRow
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1.0100%
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jalview.datamodel.HiddenCursorPosition
jalview.datamodel.HiddenCursorPosition
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1.0100%
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jalview.datamodel.ResidueCount.SymbolCounts
jalview.datamodel.ResidueCount.SymbolCounts
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1.0100%
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jalview.jbgui.GAlignmentPanel
jalview.jbgui.GAlignmentPanel
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0.9494%
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jalview.xml.binding.jalview.Sequence.DBRef
jalview.xml.binding.jalview.Sequence.DBRef
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0.937593.8%
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jalview.xml.binding.jalview.AnnotationElement
jalview.xml.binding.jalview.AnnotationElement
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0.916666791.7%
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jalview.xml.binding.jalview.SequenceSet
jalview.xml.binding.jalview.SequenceSet
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0.894736889.5%
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jalview.analysis.Conservation
jalview.analysis.Conservation
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0.868735186.9%
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jalview.datamodel.Profiles
jalview.datamodel.Profiles
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0.866666786.7%
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jalview.viewmodel.styles.ViewStyle
jalview.viewmodel.styles.ViewStyle
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0.858695685.9%
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jalview.util.QuickSort.IntComparator
jalview.util.QuickSort.IntComparator
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0.8571428785.7%
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jalview.xml.binding.jalview.JalviewModel.Viewport
jalview.xml.binding.jalview.JalviewModel.Viewport
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0.820261482%
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jalview.datamodel.VisibleContigsIterator
jalview.datamodel.VisibleContigsIterator
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0.8085106680.9%
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jalview.util.LinkedIdentityHashSet
jalview.util.LinkedIdentityHashSet
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0.7727272577.3%
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jalview.xml.binding.jalview.JalviewModel
jalview.xml.binding.jalview.JalviewModel
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0.769230876.9%
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jalview.xml.binding.jalview.Annotation
jalview.xml.binding.jalview.Annotation
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0.7545454575.5%
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jalview.xml.binding.jalview.JalviewModel.JSeq
jalview.xml.binding.jalview.JalviewModel.JSeq
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0.7575%
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jalview.schemes.ZappoColourScheme
jalview.schemes.ZappoColourScheme
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0.7575%
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jalview.datamodel.Profile
jalview.datamodel.Profile
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0.7377049373.8%
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jalview.workers.SecondaryStructureConsensusThread
jalview.workers.SecondaryStructureConsensusThread
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0.735294173.5%
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jalview.gui.FeatureRenderer
jalview.gui.FeatureRenderer
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0.7142857371.4%
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jalview.xml.binding.jalview.Sequence
jalview.xml.binding.jalview.Sequence
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0.7142857371.4%
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jalview.util.LinkedIdentityHashSet.IdentityWrapper
jalview.util.LinkedIdentityHashSet.IdentityWrapper
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0.7142857371.4%
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jalview.workers.ConsensusThread
jalview.workers.ConsensusThread
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0.696969769.7%
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jalview.datamodel.StartRegionIterator
jalview.datamodel.StartRegionIterator
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0.694444469.4%
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jalview.datamodel.HiddenColumnsCursor
jalview.datamodel.HiddenColumnsCursor
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jalview.ws.SequenceFetcher
jalview.ws.SequenceFetcher
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0.678571467.9%
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jalview.schemes.ResidueColourScheme
jalview.schemes.ResidueColourScheme
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0.666666766.7%
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jalview.gui.IdCanvas
jalview.gui.IdCanvas
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0.607017560.7%
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jalview.util.ParseHtmlBodyAndLinks
jalview.util.ParseHtmlBodyAndLinks
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0.594202959.4%
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jalview.jbgui.GAlignFrame
jalview.jbgui.GAlignFrame
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0.5731370457.3%
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jalview.workers.ConservationThread
jalview.workers.ConservationThread
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0.5666666656.7%
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jalview.renderer.ScaleRenderer
jalview.renderer.ScaleRenderer
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0.5656%
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jalview.workers.AlignCalcManager
jalview.workers.AlignCalcManager
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0.559523856%
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jalview.gui.JalviewChangeSupport
jalview.gui.JalviewChangeSupport
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0.550%
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jalview.viewmodel.ViewportProperties
jalview.viewmodel.ViewportProperties
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0.550%
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jalview.xml.binding.jalview.VAMSAS
jalview.xml.binding.jalview.VAMSAS
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0.550%
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jalview.xml.binding.jalview.Mapping
jalview.xml.binding.jalview.Mapping
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0.550%
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jalview.schemes.TaylorColourScheme
jalview.schemes.TaylorColourScheme
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0.550%
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jalview.schemes.FlowerColourScheme
jalview.schemes.FlowerColourScheme
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0.550%
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jalview.schemes.NucleotideAmbiguityColourScheme
jalview.schemes.NucleotideAmbiguityColourScheme
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0.550%
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jalview.schemes.PurinePyrimidineColourScheme
jalview.schemes.PurinePyrimidineColourScheme
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0.550%
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jalview.schemes.NucleotideColourScheme
jalview.schemes.NucleotideColourScheme
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0.550%
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jalview.schemes.BlossomColourScheme
jalview.schemes.BlossomColourScheme
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0.550%
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jalview.schemes.SunsetColourScheme
jalview.schemes.SunsetColourScheme
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0.550%
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jalview.schemes.OceanColourScheme
jalview.schemes.OceanColourScheme
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0.550%
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jalview.gui.SequenceRenderer
jalview.gui.SequenceRenderer
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0.4855769348.6%
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jalview.util.MessageManager
jalview.util.MessageManager
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0.4761904847.6%
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jalview.renderer.AnnotationRenderer
jalview.renderer.AnnotationRenderer
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0.4535714445.4%
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jalview.renderer.ResidueColourFinder
jalview.renderer.ResidueColourFinder
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0.4523809645.2%
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jalview.gui.ColourMenuHelper
jalview.gui.ColourMenuHelper
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0.4322033843.2%
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jalview.util.ShortcutKeyMaskExWrapper11
jalview.util.ShortcutKeyMaskExWrapper11
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0.4166666641.7%
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jalview.analysis.AAFrequency
jalview.analysis.AAFrequency
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0.405737740.6%
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jalview.io.FileFormats
jalview.io.FileFormats
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0.440%
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jalview.ws.dbsources.EmblSource
jalview.ws.dbsources.EmblSource
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0.440%
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jalview.schemes.HydrophobicColourScheme
jalview.schemes.HydrophobicColourScheme
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0.440%
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jalview.schemes.HelixColourScheme
jalview.schemes.HelixColourScheme
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0.440%
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jalview.schemes.TurnColourScheme
jalview.schemes.TurnColourScheme
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0.440%
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jalview.schemes.StrandColourScheme
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0.440%
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jalview.schemes.BuriedColourScheme
jalview.schemes.BuriedColourScheme
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0.440%
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jalview.gui.SeqCanvas
jalview.gui.SeqCanvas
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0.3917835739.2%
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jalview.log.JalviewAppender
jalview.log.JalviewAppender
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0.388888938.9%
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jalview.datamodel.Range
jalview.datamodel.Range
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0.388888938.9%
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jalview.io.FileLoader
jalview.io.FileLoader
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0.3879598738.8%
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jalview.viewmodel.AlignmentViewport
jalview.viewmodel.AlignmentViewport
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0.379943538%
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jalview.datamodel.GeneLocus
jalview.datamodel.GeneLocus
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0.37537.5%
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jalview.io.FastaFile
jalview.io.FastaFile
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0.3603603536%
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jalview.viewmodel.ViewportRanges
jalview.viewmodel.ViewportRanges
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0.3564356635.6%
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jalview.datamodel.ResidueCount
jalview.datamodel.ResidueCount
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0.3563636235.6%
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jalview.io.AlignFile
jalview.io.AlignFile
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0.356164435.6%
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jalview.ws.jws2.MsaWSClient
jalview.ws.jws2.MsaWSClient
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0.348993334.9%
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jalview.datamodel.DBRefEntry
jalview.datamodel.DBRefEntry
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0.3356164433.6%
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jalview.gui.AlignViewport
jalview.gui.AlignViewport
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0.3240343332.4%
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jalview.ws.rest.RestServiceDescription
jalview.ws.rest.RestServiceDescription
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0.31531.5%
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jalview.gui.AlignmentPanel
jalview.gui.AlignmentPanel
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0.3144876431.4%
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jalview.io.IdentifyFile
jalview.io.IdentifyFile
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0.3142857331.4%
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jalview.project.Jalview2XML
jalview.project.Jalview2XML
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0.311800631.2%
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jalview.renderer.seqfeatures.FeatureRenderer
jalview.renderer.seqfeatures.FeatureRenderer
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0.3056603730.6%
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jalview.renderer.ResidueShader
jalview.renderer.ResidueShader
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0.3048780630.5%
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jalview.util.Comparison
jalview.util.Comparison
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0.299212629.9%
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jalview.ws.dbsources.EmblCdsSource
jalview.ws.dbsources.EmblCdsSource
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0.285714328.6%
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jalview.schemes.JalviewColourScheme
jalview.schemes.JalviewColourScheme
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0.285714328.6%
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jalview.io.FileParse
jalview.io.FileParse
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0.2785515227.9%
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jalview.ws.jws2.JabaPreset
jalview.ws.jws2.JabaPreset
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0.2727272827.3%
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jalview.util.QuickSort
jalview.util.QuickSort
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0.258899725.9%
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jalview.datamodel.features.SequenceFeatures
jalview.datamodel.features.SequenceFeatures
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0.2547770725.5%
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jalview.gui.PaintRefresher
jalview.gui.PaintRefresher
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0.253521125.4%
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jalview.gui.IdwidthAdjuster
jalview.gui.IdwidthAdjuster
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0.2525%
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jalview.renderer.AnnotationRendererFactory
jalview.renderer.AnnotationRendererFactory
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0.2525%
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jalview.ws.rest.params.Alignment
jalview.ws.rest.params.Alignment
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jalview.gui.ScalePanel
jalview.gui.ScalePanel
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0.2397003824%
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jalview.datamodel.Sequence
jalview.datamodel.Sequence
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0.2344290623.4%
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jalview.datamodel.SequenceCursor
jalview.datamodel.SequenceCursor
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0.2333333323.3%
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jalview.gui.JvSwingUtils
jalview.gui.JvSwingUtils
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0.2312925223.1%
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jalview.gui.AnnotationLabels
jalview.gui.AnnotationLabels
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0.2132596721.3%
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jalview.ws.jws2.jabaws2.Jws2Instance
jalview.ws.jws2.jabaws2.Jws2Instance
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0.2068965620.7%
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jalview.datamodel.Alignment
jalview.datamodel.Alignment
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0.2059369220.6%
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jalview.ws.rest.InputType
jalview.ws.rest.InputType
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0.2056074720.6%
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jalview.schemes.ColourSchemeProperty
jalview.schemes.ColourSchemeProperty
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0.1944444519.4%
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jalview.schemes.IdColourScheme
jalview.schemes.IdColourScheme
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0.1739130517.4%
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jalview.analysis.AnnotationSorter
jalview.analysis.AnnotationSorter
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0.1674876816.7%
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jalview.analysis.scoremodels.ScoreModels
jalview.analysis.scoremodels.ScoreModels
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0.1636363616.4%
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jalview.ws.jws1.WS1Client
jalview.ws.jws1.WS1Client
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0.1616%
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jalview.gui.Desktop.MyDesktopManager
jalview.gui.Desktop.MyDesktopManager
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0.1555555615.6%
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jalview.datamodel.AlignmentAnnotation
jalview.datamodel.AlignmentAnnotation
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0.1504975115%
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jalview.util.Format
jalview.util.Format
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0.1490683314.9%
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jalview.schemes.TCoffeeColourScheme
jalview.schemes.TCoffeeColourScheme
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0.1475409914.8%
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jalview.analysis.CrossRef
jalview.analysis.CrossRef
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0.1434426214.3%
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jalview.log.JLogger
jalview.log.JLogger
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0.1428571514.3%
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jalview.gui.Desktop.MyDesktopPane
jalview.gui.Desktop.MyDesktopPane
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0.1428571514.3%
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jalview.ws.jws2.Jws2Discoverer
jalview.ws.jws2.Jws2Discoverer
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0.1425742514.3%
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jalview.bin.Console
jalview.bin.Console
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0.1330049213.3%
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jalview.gui.AlignFrame
jalview.gui.AlignFrame
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0.1320688413.2%
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jalview.ws.rest.params.SeqGroupIndexVector
jalview.ws.rest.params.SeqGroupIndexVector
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0.12408759412.4%
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jalview.util.DBRefUtils
jalview.util.DBRefUtils
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0.1208459212.1%
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jalview.io.FormatAdapter
jalview.io.FormatAdapter
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0.1212%
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jalview.util.StringUtils
jalview.util.StringUtils
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0.1212%
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jalview.schemes.Blosum62ColourScheme
jalview.schemes.Blosum62ColourScheme
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0.1176470611.8%
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jalview.datamodel.Mapping
jalview.datamodel.Mapping
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0.11688311411.7%
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jalview.ws.rest.RestClient
jalview.ws.rest.RestClient
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0.11538461611.5%
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jalview.datamodel.Annotation
jalview.datamodel.Annotation
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0.11428571511.4%
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jalview.gui.AnnotationPanel
jalview.gui.AnnotationPanel
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0.1123949611.2%
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jalview.util.ShortcutKeyMaskExWrapper
jalview.util.ShortcutKeyMaskExWrapper
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0.1111111111.1%
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jalview.structure.StructureSelectionManager
jalview.structure.StructureSelectionManager
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0.1090909110.9%
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jalview.gui.Desktop
jalview.gui.Desktop
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0.1087699310.9%
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jalview.io.FileFormat
jalview.io.FileFormat
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0.1085271310.9%
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jalview.log.JLoggerLog4j
jalview.log.JLoggerLog4j
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0.10679611610.7%
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jalview.ws.rest.params.AnnotationFile
jalview.ws.rest.params.AnnotationFile
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0.10256410410.3%
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jalview.io.AppletFormatAdapter
jalview.io.AppletFormatAdapter
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0.0993788849.9%
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jalview.util.ColorUtils
jalview.util.ColorUtils
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0.096774199.7%
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jalview.workers.AlignCalcWorker
jalview.workers.AlignCalcWorker
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0.09523819.5%
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jalview.ws.dbsources.Xfam
jalview.ws.dbsources.Xfam
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0.086956528.7%
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jalview.datamodel.HiddenColumns
jalview.datamodel.HiddenColumns
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0.084905668.5%
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jalview.ws.jws2.Jws2Client
jalview.ws.jws2.Jws2Client
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0.0843373468.4%
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jalview.ext.ensembl.EnsemblSequenceFetcher
jalview.ext.ensembl.EnsemblSequenceFetcher
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0.0833333368.3%
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jalview.gui.Console
jalview.gui.Console
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0.082568818.3%
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jalview.schemes.RNAHelicesColour
jalview.schemes.RNAHelicesColour
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0.082191788.2%
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jalview.gui.ProgressBar
jalview.gui.ProgressBar
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0.081300818.1%
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jalview.schemes.ColourSchemes
jalview.schemes.ColourSchemes
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0.070175447%
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jalview.analysis.scoremodels.ScoreMatrix
jalview.analysis.scoremodels.ScoreMatrix
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0.069958857%
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jalview.datamodel.SequenceGroup
jalview.datamodel.SequenceGroup
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0.068820226.9%
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jalview.gui.IdPanel
jalview.gui.IdPanel
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0.067264576.7%
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jalview.schemes.PIDColourScheme
jalview.schemes.PIDColourScheme
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0.066666676.7%
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jalview.viewmodel.seqfeatures.FeatureRendererModel
jalview.viewmodel.seqfeatures.FeatureRendererModel
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0.0657276966.6%
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jalview.gui.AppJmolBinding
jalview.gui.AppJmolBinding
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0.065420566.5%
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jalview.datamodel.HiddenSequences
jalview.datamodel.HiddenSequences
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0.063926946.4%
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jalview.gui.StructureViewerBase
jalview.gui.StructureViewerBase
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0.063328426.3%
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jalview.viewmodel.seqfeatures.FeaturesDisplayed
jalview.viewmodel.seqfeatures.FeaturesDisplayed
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0.06256.2%
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jalview.util.MapList
jalview.util.MapList
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0.0623052986.2%
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ext.vamsas.ServiceHandle
ext.vamsas.ServiceHandle
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0.061224496.1%
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jalview.gui.ViewSelectionMenu
jalview.gui.ViewSelectionMenu
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0.059405945.9%
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jalview.ws.seqfetcher.ASequenceFetcher
jalview.ws.seqfetcher.ASequenceFetcher
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0.0577777775.8%
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jalview.util.Platform
jalview.util.Platform
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0.0566037745.7%
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jalview.datamodel.ColumnSelection.IntList
jalview.datamodel.ColumnSelection.IntList
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0.0560747655.6%
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jalview.ws.seqfetcher.DbSourceProxyImpl
jalview.ws.seqfetcher.DbSourceProxyImpl
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0.0540540555.4%
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jalview.ws.jws1.Discoverer
jalview.ws.jws1.Discoverer
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0.0512820525.1%
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jalview.analysis.GeneticCodes
jalview.analysis.GeneticCodes
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0.0496894425%
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jalview.datamodel.SecondaryStructureCount
jalview.datamodel.SecondaryStructureCount
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0.0468754.7%
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jalview.datamodel.features.FeatureStore
jalview.datamodel.features.FeatureStore
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0.045317224.5%
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jalview.xml.binding.jalview.ObjectFactory
jalview.xml.binding.jalview.ObjectFactory
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0.0427350444.3%
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jalview.ws.jws2.JabaParamStore
jalview.ws.jws2.JabaParamStore
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0.0416666684.2%
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jalview.bin.Cache
jalview.bin.Cache
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0.0385674953.9%
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jalview.ws.dbsources.Pdb
jalview.ws.dbsources.Pdb
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0.0363636353.6%
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jalview.ws.jws1.JPredClient
jalview.ws.jws1.JPredClient
|
0.0310559013.1%
|
|
|
jalview.schemes.FeatureColour
jalview.schemes.FeatureColour
|
0.0294736852.9%
|
|
|
jalview.gui.TreePanel
jalview.gui.TreePanel
|
0.0291545192.9%
|
|
|
jalview.datamodel.SequenceFeature
jalview.datamodel.SequenceFeature
|
0.028776982.9%
|
|
|
jalview.ext.jmol.JalviewJmolBinding
jalview.ext.jmol.JalviewJmolBinding
|
0.0257425742.6%
|
|
|
jalview.structures.models.AAStructureBindingModel
jalview.structures.models.AAStructureBindingModel
|
0.0256111752.6%
|
|
|
jalview.structure.StructureCommandsBase
jalview.structure.StructureCommandsBase
|
0.0243902432.4%
|
|
|
jalview.schemes.ClustalxColourScheme
jalview.schemes.ClustalxColourScheme
|
0.0169491531.7%
|
|
|
jalview.analysis.AlignmentUtils
jalview.analysis.AlignmentUtils
|
0.016414971.6%
|
|
|
jalview.ws.dbsources.Uniprot
jalview.ws.dbsources.Uniprot
|
0.0155642021.6%
|
|
|
jalview.gui.AppJmol
jalview.gui.AppJmol
|
0.0150375941.5%
|
|
|
jalview.controller.AlignViewController
jalview.controller.AlignViewController
|
0.0136518771.4%
|
|
|
jalview.analysis.AlignSeq
jalview.analysis.AlignSeq
|
0.0128205131.3%
|
|
|
jalview.gui.SeqPanel
jalview.gui.SeqPanel
|
0.0125082291.3%
|
|
|
jalview.io.SequenceAnnotationReport
jalview.io.SequenceAnnotationReport
|
0.0122699381.2%
|
|
|
jalview.bin.Jalview
jalview.bin.Jalview
|
0.0117328521.2%
|
|
|
jalview.util.HttpUtils
jalview.util.HttpUtils
|
0.01169590651.2%
|
|
|
jalview.datamodel.ColumnSelection
jalview.datamodel.ColumnSelection
|
0.0103092781%
|
|
|
jalview.gui.SequenceFetcher
jalview.gui.SequenceFetcher
|
0.0089285720.9%
|
|
|
jalview.bin.argparser.BootstrapArgs
jalview.bin.argparser.BootstrapArgs
|
0.0082644620.8%
|
|
|
jalview.ext.ensembl.EnsemblGene
jalview.ext.ensembl.EnsemblGene
|
0.0081632650.8%
|
|
|
jalview.gui.QuitHandler
jalview.gui.QuitHandler
|
0.00722021660.7%
|
|
