|
jalview.viewmodel.seqfeatures.FeatureRendererModel.FeatureSettingsBean
jalview.viewmodel.seqfeatures.FeatureRendererModel.FeatureSettingsBean
|
1.0100%
|
|
|
jalview.ws.WSClient
jalview.ws.WSClient
|
1.0100%
|
|
|
jalview.datamodel.ResidueCount.SymbolCounts
jalview.datamodel.ResidueCount.SymbolCounts
|
1.0100%
|
|
|
jalview.jbgui.GAlignmentPanel
jalview.jbgui.GAlignmentPanel
|
0.9772727597.7%
|
|
|
jalview.schemabinding.version2.descriptors.FilterDescriptor
jalview.schemabinding.version2.descriptors.FilterDescriptor
|
0.88059788.1%
|
|
|
jalview.datamodel.Profiles
jalview.datamodel.Profiles
|
0.833333383.3%
|
|
|
jalview.schemabinding.version2.descriptors.ColourDescriptor
jalview.schemabinding.version2.descriptors.ColourDescriptor
|
0.8152866481.5%
|
|
|
jalview.schemabinding.version2.descriptors.MatcherSetDescriptor
jalview.schemabinding.version2.descriptors.MatcherSetDescriptor
|
0.809523881%
|
|
|
jalview.schemabinding.version2.descriptors.MatchConditionDescriptor
jalview.schemabinding.version2.descriptors.MatchConditionDescriptor
|
0.809523881%
|
|
|
jalview.schemabinding.version2.descriptors.CompoundMatcherDescriptor
jalview.schemabinding.version2.descriptors.CompoundMatcherDescriptor
|
0.7901234679%
|
|
|
jalview.analysis.Conservation
jalview.analysis.Conservation
|
0.7783251477.8%
|
|
|
jalview.schemabinding.version2.descriptors.FeatureMatcherSetDescriptor
jalview.schemabinding.version2.descriptors.FeatureMatcherSetDescriptor
|
0.777777877.8%
|
|
|
jalview.schemabinding.version2.descriptors.JalviewUserColoursDescriptor
jalview.schemabinding.version2.descriptors.JalviewUserColoursDescriptor
|
0.77391377.4%
|
|
|
jalview.util.LinkedIdentityHashSet
jalview.util.LinkedIdentityHashSet
|
0.7727272577.3%
|
|
|
jalview.schemabinding.version2.descriptors.FeatureMatcherDescriptor
jalview.schemabinding.version2.descriptors.FeatureMatcherDescriptor
|
0.7603305676%
|
|
|
jalview.ws.SequenceFetcher
jalview.ws.SequenceFetcher
|
0.7435897674.4%
|
|
|
jalview.gui.FeatureRenderer
jalview.gui.FeatureRenderer
|
0.7142857371.4%
|
|
|
jalview.util.LinkedIdentityHashSet.IdentityWrapper
jalview.util.LinkedIdentityHashSet.IdentityWrapper
|
0.7142857371.4%
|
|
|
jalview.datamodel.features.RangeComparator
jalview.datamodel.features.RangeComparator
|
0.705882470.6%
|
|
|
jalview.workers.ConsensusThread
jalview.workers.ConsensusThread
|
0.701030970.1%
|
|
|
jalview.gui.JalviewAppender
jalview.gui.JalviewAppender
|
0.770%
|
|
|
jalview.datamodel.Profile
jalview.datamodel.Profile
|
0.6774193667.7%
|
|
|
jalview.schemabinding.version2.types.ColourThreshTypeType
jalview.schemabinding.version2.types.ColourThreshTypeType
|
0.666666766.7%
|
|
|
jalview.schemabinding.version2.types.FeatureMatcherByType
jalview.schemabinding.version2.types.FeatureMatcherByType
|
0.666666766.7%
|
|
|
jalview.util.matcher.Condition
jalview.util.matcher.Condition
|
0.631578963.2%
|
|
|
jalview.jbgui.GAlignFrame
jalview.jbgui.GAlignFrame
|
0.574167557.4%
|
|
|
jalview.workers.ConservationThread
jalview.workers.ConservationThread
|
0.568965556.9%
|
|
|
jalview.schemabinding.version2.Colour
jalview.schemabinding.version2.Colour
|
0.5454545654.5%
|
|
|
jalview.util.MessageManager
jalview.util.MessageManager
|
0.5357142753.6%
|
|
|
jalview.viewmodel.ViewportProperties
jalview.viewmodel.ViewportProperties
|
0.550%
|
|
|
jalview.schemes.ZappoColourScheme
jalview.schemes.ZappoColourScheme
|
0.550%
|
|
|
jalview.schemes.TaylorColourScheme
jalview.schemes.TaylorColourScheme
|
0.550%
|
|
|
jalview.schemes.PurinePyrimidineColourScheme
jalview.schemes.PurinePyrimidineColourScheme
|
0.550%
|
|
|
jalview.schemes.NucleotideColourScheme
jalview.schemes.NucleotideColourScheme
|
0.550%
|
|
|
jalview.gui.FeatureSettings
jalview.gui.FeatureSettings
|
0.4576757645.8%
|
|
|
jalview.ws.jws2.MsaWSClient
jalview.ws.jws2.MsaWSClient
|
0.448979644.9%
|
|
|
jalview.datamodel.features.FeatureAttributes.AttributeData
jalview.datamodel.features.FeatureAttributes.AttributeData
|
0.4468085244.7%
|
|
|
jalview.ext.ensembl.EnsemblGenomes
jalview.ext.ensembl.EnsemblGenomes
|
0.4444444544.4%
|
|
|
jalview.gui.ColourMenuHelper
jalview.gui.ColourMenuHelper
|
0.4322033843.2%
|
|
|
jalview.schemabinding.version2.FeatureMatcherSet
jalview.schemabinding.version2.FeatureMatcherSet
|
0.4285714342.9%
|
|
|
jalview.datamodel.HiddenCursorPosition
jalview.datamodel.HiddenCursorPosition
|
0.4285714342.9%
|
|
|
jalview.schemabinding.version2.Filter
jalview.schemabinding.version2.Filter
|
0.4166666641.7%
|
|
|
jalview.workers.AlignCalcManager
jalview.workers.AlignCalcManager
|
0.4129032241.3%
|
|
|
jalview.viewmodel.seqfeatures.FeatureRendererModel
jalview.viewmodel.seqfeatures.FeatureRendererModel
|
0.4116575741.2%
|
|
|
jalview.io.FileFormats
jalview.io.FileFormats
|
0.440%
|
|
|
jalview.schemes.TurnColourScheme
jalview.schemes.TurnColourScheme
|
0.440%
|
|
|
jalview.schemes.StrandColourScheme
jalview.schemes.StrandColourScheme
|
0.440%
|
|
|
jalview.schemes.HydrophobicColourScheme
jalview.schemes.HydrophobicColourScheme
|
0.440%
|
|
|
jalview.schemes.HelixColourScheme
jalview.schemes.HelixColourScheme
|
0.440%
|
|
|
jalview.schemes.BuriedColourScheme
jalview.schemes.BuriedColourScheme
|
0.440%
|
|
|
jalview.schemabinding.version2.FeatureMatcher
jalview.schemabinding.version2.FeatureMatcher
|
0.378378437.8%
|
|
|
jalview.datamodel.features.FeatureAttributes
jalview.datamodel.features.FeatureAttributes
|
0.3636363736.4%
|
|
|
jalview.schemabinding.version2.JalviewUserColours
jalview.schemabinding.version2.JalviewUserColours
|
0.3636%
|
|
|
jalview.io.AlignFile
jalview.io.AlignFile
|
0.3571428735.7%
|
|
|
jalview.schemes.ResidueColourScheme
jalview.schemes.ResidueColourScheme
|
0.3571428735.7%
|
|
|
jalview.gui.FeatureSettings.FeatureTableModel
jalview.gui.FeatureSettings.FeatureTableModel
|
0.344827634.5%
|
|
|
jalview.datamodel.features.SequenceFeatures
jalview.datamodel.features.SequenceFeatures
|
0.3437534.4%
|
|
|
jalview.schemabinding.version2.types.NoValueColour
jalview.schemabinding.version2.types.NoValueColour
|
0.3333333433.3%
|
|
|
jalview.datamodel.features.FeatureStore
jalview.datamodel.features.FeatureStore
|
0.3333333433.3%
|
|
|
jalview.datamodel.features.FeatureStore.SearchCriterion
jalview.datamodel.features.FeatureStore.SearchCriterion
|
0.3333333433.3%
|
|
|
jalview.datamodel.ResidueCount
jalview.datamodel.ResidueCount
|
0.3321299633.2%
|
|
|
jalview.io.FileLoader
jalview.io.FileLoader
|
0.3232%
|
|
|
jalview.ws.rest.RestServiceDescription
jalview.ws.rest.RestServiceDescription
|
0.31531.5%
|
|
|
jalview.io.FastaFile
jalview.io.FastaFile
|
0.302752330.3%
|
|
|
jalview.datamodel.features.FeatureMatcher
jalview.datamodel.features.FeatureMatcher
|
0.2974683629.7%
|
|
|
jalview.viewmodel.styles.ViewStyle
jalview.viewmodel.styles.ViewStyle
|
0.2967479529.7%
|
|
|
jalview.gui.JvSwingUtils
jalview.gui.JvSwingUtils
|
0.29251729.3%
|
|
|
jalview.ws.jws2.SequenceAnnotationWSClient
jalview.ws.jws2.SequenceAnnotationWSClient
|
0.2903225729%
|
|
|
jalview.ws.dbsources.RfamSeed
jalview.ws.dbsources.RfamSeed
|
0.285714328.6%
|
|
|
jalview.schemes.JalviewColourScheme
jalview.schemes.JalviewColourScheme
|
0.285714328.6%
|
|
|
jalview.io.IdentifyFile
jalview.io.IdentifyFile
|
0.2816901528.2%
|
|
|
jalview.gui.AlignViewport
jalview.gui.AlignViewport
|
0.2807017628.1%
|
|
|
jalview.analysis.AAFrequency
jalview.analysis.AAFrequency
|
0.2796352528%
|
|
|
jalview.ws.jws2.JabaPreset
jalview.ws.jws2.JabaPreset
|
0.2727272827.3%
|
|
|
jalview.datamodel.features.FeatureMatcherSet
jalview.datamodel.features.FeatureMatcherSet
|
0.2661870426.6%
|
|
|
jalview.gui.AlignmentPanel
jalview.gui.AlignmentPanel
|
0.259165625.9%
|
|
|
jalview.gui.JalviewChangeSupport
jalview.gui.JalviewChangeSupport
|
0.2525%
|
|
|
jalview.ws.jws2.jabaws2.Jws2Instance
jalview.ws.jws2.jabaws2.Jws2Instance
|
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.schemabinding.version2.CompoundMatcher
jalview.schemabinding.version2.CompoundMatcher
|
0.2328767223.3%
|
|
|
jalview.ws.jws2.Jws2Discoverer
jalview.ws.jws2.Jws2Discoverer
|
0.2322834623.2%
|
|
|
jalview.viewmodel.ViewportRanges
jalview.viewmodel.ViewportRanges
|
0.231023123.1%
|
|
|
jalview.ext.ensembl.EnsemblSequenceFetcher
jalview.ext.ensembl.EnsemblSequenceFetcher
|
0.2307692323.1%
|
|
|
jalview.ws.jws2.Jws2Client
jalview.ws.jws2.Jws2Client
|
0.2202380922%
|
|
|
jalview.schemes.FeatureColour
jalview.schemes.FeatureColour
|
0.2164502121.6%
|
|
|
jalview.io.FileParse
jalview.io.FileParse
|
0.2118959121.2%
|
|
|
jalview.viewmodel.seqfeatures.FeaturesDisplayed
jalview.viewmodel.seqfeatures.FeaturesDisplayed
|
0.2068965620.7%
|
|
|
jalview.ws.rest.InputType
jalview.ws.rest.InputType
|
0.2056074720.6%
|
|
|
jalview.viewmodel.AlignmentViewport
jalview.viewmodel.AlignmentViewport
|
0.1986242519.9%
|
|
|
jalview.util.Comparison
jalview.util.Comparison
|
0.1977401119.8%
|
|
|
jalview.util.Format
jalview.util.Format
|
0.190476219%
|
|
|
jalview.ws.dbsources.EmblSource
jalview.ws.dbsources.EmblSource
|
0.1818181918.2%
|
|
|
jalview.analysis.AnnotationSorter
jalview.analysis.AnnotationSorter
|
0.1818181918.2%
|
|
|
jalview.datamodel.SequenceFeature
jalview.datamodel.SequenceFeature
|
0.178030317.8%
|
|
|
jalview.gui.FeatureSettings.FilterRenderer
jalview.gui.FeatureSettings.FilterRenderer
|
0.1616%
|
|
|
jalview.ws.jws1.WS1Client
jalview.ws.jws1.WS1Client
|
0.1616%
|
|
|
jalview.util.matcher.Matcher
jalview.util.matcher.Matcher
|
0.1545454615.5%
|
|
|
jalview.ws.dbsources.EmblCdsSource
jalview.ws.dbsources.EmblCdsSource
|
0.1538461615.4%
|
|
|
jalview.gui.PaintRefresher
jalview.gui.PaintRefresher
|
0.1526717515.3%
|
|
|
jalview.schemes.TCoffeeColourScheme
jalview.schemes.TCoffeeColourScheme
|
0.1475409914.8%
|
|
|
jalview.util.StringUtils
jalview.util.StringUtils
|
0.1403508814%
|
|
|
jalview.gui.FeatureSettings.ColorRenderer
jalview.gui.FeatureSettings.ColorRenderer
|
0.1333333413.3%
|
|
|
jalview.gui.FeatureSettings.FilterEditor
jalview.gui.FeatureSettings.FilterEditor
|
0.1333333413.3%
|
|
|
jalview.datamodel.Alignment
jalview.datamodel.Alignment
|
0.1306081713.1%
|
|
|
jalview.gui.AlignFrame
jalview.gui.AlignFrame
|
0.1282881512.8%
|
|
|
jalview.schemabinding.version2.MatcherSet
jalview.schemabinding.version2.MatcherSet
|
0.12512.5%
|
|
|
jalview.schemabinding.version2.MatchCondition
jalview.schemabinding.version2.MatchCondition
|
0.12512.5%
|
|
|
jalview.ws.rest.params.SeqGroupIndexVector
jalview.ws.rest.params.SeqGroupIndexVector
|
0.12408759412.4%
|
|
|
jalview.io.FormatAdapter
jalview.io.FormatAdapter
|
0.1237113412.4%
|
|
|
jalview.gui.Console
jalview.gui.Console
|
0.1234177212.3%
|
|
|
jalview.gui.Desktop.MyDesktopPane
jalview.gui.Desktop.MyDesktopPane
|
0.1219512212.2%
|
|
|
jalview.io.FileFormat
jalview.io.FileFormat
|
0.1196581212%
|
|
|
jalview.schemes.Blosum62ColourScheme
jalview.schemes.Blosum62ColourScheme
|
0.1176470611.8%
|
|
|
jalview.ws.rest.RestClient
jalview.ws.rest.RestClient
|
0.11538461611.5%
|
|
|
jalview.datamodel.Annotation
jalview.datamodel.Annotation
|
0.11428571511.4%
|
|
|
jalview.gui.IdwidthAdjuster
jalview.gui.IdwidthAdjuster
|
0.1136363711.4%
|
|
|
jalview.gui.Desktop.MyDesktopManager
jalview.gui.Desktop.MyDesktopManager
|
0.1111111111.1%
|
|
|
jalview.schemes.ColourSchemeProperty
jalview.schemes.ColourSchemeProperty
|
0.1111111111.1%
|
|
|
jalview.gui.ProgressBar
jalview.gui.ProgressBar
|
0.1084337410.8%
|
|
|
jalview.gui.FeatureSettings.ColorEditor
jalview.gui.FeatureSettings.ColorEditor
|
0.1071428610.7%
|
|
|
jalview.util.QuickSort
jalview.util.QuickSort
|
0.10679611610.7%
|
|
|
jalview.io.AppletFormatAdapter
jalview.io.AppletFormatAdapter
|
0.1037735910.4%
|
|
|
jalview.datamodel.Sequence
jalview.datamodel.Sequence
|
0.1033210310.3%
|
|
|
jalview.analysis.scoremodels.ScoreModels
jalview.analysis.scoremodels.ScoreModels
|
0.10256410410.3%
|
|
|
jalview.ws.rest.params.AnnotationFile
jalview.ws.rest.params.AnnotationFile
|
0.10256410410.3%
|
|
|
jalview.workers.AlignCalcWorker
jalview.workers.AlignCalcWorker
|
0.09523819.5%
|
|
|
jalview.util.Platform
jalview.util.Platform
|
0.090909099.1%
|
|
|
jalview.util.ColorUtils
jalview.util.ColorUtils
|
0.089385478.9%
|
|
|
jalview.schemes.ColourSchemes
jalview.schemes.ColourSchemes
|
0.085106388.5%
|
|
|
jalview.schemes.RNAHelicesColour
jalview.schemes.RNAHelicesColour
|
0.082191788.2%
|
|
|
jalview.gui.IdPanel
jalview.gui.IdPanel
|
0.080402018%
|
|
|
jalview.datamodel.AlignmentAnnotation
jalview.datamodel.AlignmentAnnotation
|
0.0778523467.8%
|
|
|
jalview.ws.dbsources.Xfam
jalview.ws.dbsources.Xfam
|
0.076923087.7%
|
|
|
jalview.gui.Desktop
jalview.gui.Desktop
|
0.070556317.1%
|
|
|
jalview.analysis.scoremodels.ScoreMatrix
jalview.analysis.scoremodels.ScoreMatrix
|
0.067264576.7%
|
|
|
jalview.schemes.PIDColourScheme
jalview.schemes.PIDColourScheme
|
0.066666676.7%
|
|
|
jalview.analysis.CrossRef
jalview.analysis.CrossRef
|
0.0649895156.5%
|
|
|
ext.vamsas.ServiceHandle
ext.vamsas.ServiceHandle
|
0.061224496.1%
|
|
|
jalview.renderer.ResidueShader
jalview.renderer.ResidueShader
|
0.0608695636.1%
|
|
|
jalview.gui.ViewSelectionMenu
jalview.gui.ViewSelectionMenu
|
0.059405945.9%
|
|
|
jalview.ws.seqfetcher.ASequenceFetcher
jalview.ws.seqfetcher.ASequenceFetcher
|
0.0577777775.8%
|
|
|
jalview.util.DBRefUtils
jalview.util.DBRefUtils
|
0.0545454555.5%
|
|
|
jalview.ws.seqfetcher.DbSourceProxyImpl
jalview.ws.seqfetcher.DbSourceProxyImpl
|
0.0540540555.4%
|
|
|
jalview.ws.jws1.Discoverer
jalview.ws.jws1.Discoverer
|
0.0512820525.1%
|
|
|
jalview.gui.Jalview2XML
jalview.gui.Jalview2XML
|
0.0447852764.5%
|
|
|
jalview.structure.StructureSelectionManager
jalview.structure.StructureSelectionManager
|
0.0439560454.4%
|
|
|
jalview.gui.AnnotationPanel
jalview.gui.AnnotationPanel
|
0.043831174.4%
|
|
|
jalview.bin.Cache
jalview.bin.Cache
|
0.0433436524.3%
|
|
|
jalview.ws.dbsources.Pdb
jalview.ws.dbsources.Pdb
|
0.042553194.3%
|
|
|
jalview.ws.jws2.JabaParamStore
jalview.ws.jws2.JabaParamStore
|
0.0416666684.2%
|
|
|
jalview.datamodel.ColumnSelection.IntList
jalview.datamodel.ColumnSelection.IntList
|
0.0373831763.7%
|
|
|
jalview.ws.jws1.JPredClient
jalview.ws.jws1.JPredClient
|
0.0310559013.1%
|
|
|
jalview.ws.dbsources.Uniprot
jalview.ws.dbsources.Uniprot
|
0.0289855082.9%
|
|
|
jalview.renderer.ResidueColourFinder
jalview.renderer.ResidueColourFinder
|
0.0238095242.4%
|
|
|
jalview.gui.ScalePanel
jalview.gui.ScalePanel
|
0.0235294122.4%
|
|
|
jalview.schemes.ClustalxColourScheme
jalview.schemes.ClustalxColourScheme
|
0.0215053762.2%
|
|
|
jalview.datamodel.HiddenColumns
jalview.datamodel.HiddenColumns
|
0.0188679251.9%
|
|
|
jalview.analysis.AlignSeq
jalview.analysis.AlignSeq
|
0.0184842891.8%
|
|
|
jalview.gui.IdCanvas
jalview.gui.IdCanvas
|
0.018315021.8%
|
|
|
jalview.gui.SeqPanel
jalview.gui.SeqPanel
|
0.0177419351.8%
|
|
|
jalview.gui.AnnotationLabels
jalview.gui.AnnotationLabels
|
0.016750421.7%
|
|
|
jalview.controller.AlignViewController
jalview.controller.AlignViewController
|
0.0167364011.7%
|
|
|
jalview.datamodel.HiddenColumnsCursor
jalview.datamodel.HiddenColumnsCursor
|
0.0156251.6%
|
|
|
jalview.bin.Jalview
jalview.bin.Jalview
|
0.0154109591.5%
|
|
|
jalview.gui.SequenceRenderer
jalview.gui.SequenceRenderer
|
0.0147783251.5%
|
|
|
jalview.gui.SequenceFetcher
jalview.gui.SequenceFetcher
|
0.0117416831.2%
|
|
|
jalview.gui.SeqCanvas
jalview.gui.SeqCanvas
|
0.01024590151%
|
|
|
jalview.renderer.seqfeatures.FeatureRenderer
jalview.renderer.seqfeatures.FeatureRenderer
|
0.0100502511%
|
|
|
jalview.jbgui.GDesktop
jalview.jbgui.GDesktop
|
0.0096153851%
|
|
|
jalview.datamodel.HiddenSequences
jalview.datamodel.HiddenSequences
|
0.009132420.9%
|
|
|
jalview.ext.ensembl.EnsemblGene
jalview.ext.ensembl.EnsemblGene
|
0.0081632650.8%
|
|
|
jalview.io.SequenceAnnotationReport
jalview.io.SequenceAnnotationReport
|
0.0077821010.8%
|
|
|
jalview.datamodel.ColumnSelection
jalview.datamodel.ColumnSelection
|
0.0041322310.4%
|
|
|
jalview.renderer.AnnotationRenderer
jalview.renderer.AnnotationRenderer
|
0.0040858020.4%
|
|
