|
jalview.ws2.actions.hmmer.PhmmerAction.Builder
jalview.ws2.actions.hmmer.PhmmerAction.Builder
|
1.0100%
|
|
|
jalview.ws.params.simple.StringParameter.Builder
jalview.ws.params.simple.StringParameter.Builder
|
1.0100%
|
|
|
com.stevesoft.pat.patInf
com.stevesoft.pat.patInf
|
1.0100%
|
|
|
jalview.io.DataSourceType
jalview.io.DataSourceType
|
1.0100%
|
|
|
jalview.renderer.ContactMapRenderer.Shading
jalview.renderer.ContactMapRenderer.Shading
|
1.0100%
|
|
|
jalview.renderer.ScaleRenderer.ScaleMark
jalview.renderer.ScaleRenderer.ScaleMark
|
1.0100%
|
|
|
jalview.ws2.actions.alignment.AlignmentAction.Builder
jalview.ws2.actions.alignment.AlignmentAction.Builder
|
1.0100%
|
|
|
jalview.ws2.actions.secstructpred.SecStructPredAction.Builder
jalview.ws2.actions.secstructpred.SecStructPredAction.Builder
|
1.0100%
|
|
|
jalview.ws2.api.WebService.Builder
jalview.ws2.api.WebService.Builder
|
1.0100%
|
|
|
jalview.ws.params.ParamDatastoreI
jalview.ws.params.ParamDatastoreI
|
1.0100%
|
|
|
jalview.datamodel.ResidueCount.SymbolCounts
jalview.datamodel.ResidueCount.SymbolCounts
|
1.0100%
|
|
|
jalview.schemes.FlowerColourScheme
jalview.schemes.FlowerColourScheme
|
1.0100%
|
|
|
jalview.structure.StructureImportSettings.TFType
jalview.structure.StructureImportSettings.TFType
|
1.0100%
|
|
|
jalview.ws2.actions.annotation.AnnotationAction.Builder
jalview.ws2.actions.annotation.AnnotationAction.Builder
|
1.0100%
|
|
|
jalview.jbgui.GAlignmentPanel
jalview.jbgui.GAlignmentPanel
|
0.9494%
|
|
|
jalview.gui.StructureViewer.ViewerType
jalview.gui.StructureViewer.ViewerType
|
0.928571492.9%
|
|
|
jalview.analysis.Conservation
jalview.analysis.Conservation
|
0.881642588.2%
|
|
|
jalview.structure.AtomSpecModel
jalview.structure.AtomSpecModel
|
0.8809523688.1%
|
|
|
jalview.datamodel.Profiles
jalview.datamodel.Profiles
|
0.866666786.7%
|
|
|
jalview.ws.params.simple.BooleanOption.Builder
jalview.ws.params.simple.BooleanOption.Builder
|
0.8571428785.7%
|
|
|
jalview.ws2.client.slivka.SlivkaWSDiscoverer
jalview.ws2.client.slivka.SlivkaWSDiscoverer
|
0.85234985.2%
|
|
|
jalview.json.binding.biojs.BioJSReleasePojo
jalview.json.binding.biojs.BioJSReleasePojo
|
0.8461538684.6%
|
|
|
com.stevesoft.pat.Rthings
com.stevesoft.pat.Rthings
|
0.8461538684.6%
|
|
|
mc_view.Residue
mc_view.Residue
|
0.8461538684.6%
|
|
|
jalview.datamodel.ContactListImpl
jalview.datamodel.ContactListImpl
|
0.830508583.1%
|
|
|
jalview.datamodel.annotations.AlphaFoldAnnotationRowBuilder
jalview.datamodel.annotations.AlphaFoldAnnotationRowBuilder
|
0.8260869482.6%
|
|
|
jalview.workers.SecondaryStructureConsensusThread
jalview.workers.SecondaryStructureConsensusThread
|
0.801886880.2%
|
|
|
jalview.workers.ConsensusThread
jalview.workers.ConsensusThread
|
0.880%
|
|
|
jalview.ws.params.simple.Option.Builder
jalview.ws.params.simple.Option.Builder
|
0.880%
|
|
|
jalview.ws2.api.WebService
jalview.ws2.api.WebService
|
0.880%
|
|
|
jalview.util.LinkedIdentityHashSet
jalview.util.LinkedIdentityHashSet
|
0.7727272577.3%
|
|
|
jalview.datamodel.Profile
jalview.datamodel.Profile
|
0.770491877%
|
|
|
jalview.workers.AlignCalcManager2.WorkerManager
jalview.workers.AlignCalcManager2.WorkerManager
|
0.7575%
|
|
|
jalview.structures.models.SequenceStructureBindingModel
jalview.structures.models.SequenceStructureBindingModel
|
0.7575%
|
|
|
jalview.schemes.ZappoColourScheme
jalview.schemes.ZappoColourScheme
|
0.7575%
|
|
|
jalview.fts.core.FTSDataColumnPreferences
jalview.fts.core.FTSDataColumnPreferences
|
0.745762774.6%
|
|
|
jalview.ws.jws2.jabaws2.Jws2InstanceFactory
jalview.ws.jws2.jabaws2.Jws2InstanceFactory
|
0.7391304473.9%
|
|
|
jalview.ws2.client.jpred4.JPred4WSDiscoverer
jalview.ws2.client.jpred4.JPred4WSDiscoverer
|
0.738095273.8%
|
|
|
jalview.schemes.ResidueColourScheme
jalview.schemes.ResidueColourScheme
|
0.738095273.8%
|
|
|
jalview.workers.AlignCalcManager2.SimpleWorkerManager
jalview.workers.AlignCalcManager2.SimpleWorkerManager
|
0.7142857371.4%
|
|
|
jalview.gui.FeatureRenderer
jalview.gui.FeatureRenderer
|
0.7142857371.4%
|
|
|
jalview.util.LinkedIdentityHashSet.IdentityWrapper
jalview.util.LinkedIdentityHashSet.IdentityWrapper
|
0.7142857371.4%
|
|
|
jalview.ws2.actions.BaseAction
jalview.ws2.actions.BaseAction
|
0.7142857371.4%
|
|
|
jalview.datamodel.ContactMapHolder
jalview.datamodel.ContactMapHolder
|
0.7115384371.2%
|
|
|
jalview.jbgui.GStructureViewer
jalview.jbgui.GStructureViewer
|
0.7065217570.7%
|
|
|
jalview.ws2.client.slivka.SlivkaParamStoreFactory
jalview.ws2.client.slivka.SlivkaParamStoreFactory
|
0.7028985670.3%
|
|
|
jalview.util.MapUtils
jalview.util.MapUtils
|
0.695652269.6%
|
|
|
jalview.renderer.ContactMapRenderer
jalview.renderer.ContactMapRenderer
|
0.693877669.4%
|
|
|
jalview.json.binding.biojs.BioJSRepositoryPojo
jalview.json.binding.biojs.BioJSRepositoryPojo
|
0.687568.8%
|
|
|
jalview.ws.api.UIinfo
jalview.ws.api.UIinfo
|
0.686274568.6%
|
|
|
jalview.workers.ConservationThread
jalview.workers.ConservationThread
|
0.666666766.7%
|
|
|
jalview.ws.sifts.SiftsSettings
jalview.ws.sifts.SiftsSettings
|
0.666666766.7%
|
|
|
jalview.ws.jws2.JabaWsServerQuery
jalview.ws.jws2.JabaWsServerQuery
|
0.6562565.6%
|
|
|
jalview.ws.params.simple.DoubleParameter.Builder
jalview.ws.params.simple.DoubleParameter.Builder
|
0.655172465.5%
|
|
|
jalview.ws.params.simple.IntegerParameter.Builder
jalview.ws.params.simple.IntegerParameter.Builder
|
0.655172465.5%
|
|
|
jalview.ws.SequenceFetcher
jalview.ws.SequenceFetcher
|
0.6470588464.7%
|
|
|
jalview.renderer.ResidueColourFinder
jalview.renderer.ResidueColourFinder
|
0.6428571364.3%
|
|
|
jalview.gui.AssociatePdbFileWithSeq
jalview.gui.AssociatePdbFileWithSeq
|
0.62562.5%
|
|
|
jalview.renderer.AnnotationRendererFactory
jalview.renderer.AnnotationRendererFactory
|
0.62562.5%
|
|
|
jalview.schemes.FeatureSettingsAdapter
jalview.schemes.FeatureSettingsAdapter
|
0.62562.5%
|
|
|
jalview.ws2.actions.BaseAction.Builder
jalview.ws2.actions.BaseAction.Builder
|
0.6190476461.9%
|
|
|
jalview.bin.argparser.SubVals
jalview.bin.argparser.SubVals
|
0.618556761.9%
|
|
|
jalview.bin.argparser.BootstrapArgs
jalview.bin.argparser.BootstrapArgs
|
0.6157024561.6%
|
|
|
jalview.ws2.client.ebi.JobDispatcherWSDiscoverer
jalview.ws2.client.ebi.JobDispatcherWSDiscoverer
|
0.612244961.2%
|
|
|
jalview.ws2.actions.alignment.AlignmentAction
jalview.ws2.actions.alignment.AlignmentAction
|
0.660%
|
|
|
jalview.util.ParseHtmlBodyAndLinks
jalview.util.ParseHtmlBodyAndLinks
|
0.594202959.4%
|
|
|
jalview.jbgui.GStructureChooser.CustomComboSeparatorsRenderer
jalview.jbgui.GStructureChooser.CustomComboSeparatorsRenderer
|
0.583333358.3%
|
|
|
jalview.ws.jws2.jabaws2.Jws2Instance
jalview.ws.jws2.jabaws2.Jws2Instance
|
0.576923157.7%
|
|
|
jalview.ws2.client.api.AbstractWebServiceDiscoverer
jalview.ws2.client.api.AbstractWebServiceDiscoverer
|
0.575471757.5%
|
|
|
jalview.ws.jws2.PreferredServiceRegistry
jalview.ws.jws2.PreferredServiceRegistry
|
0.571428657.1%
|
|
|
jalview.jbgui.GAlignFrame
jalview.jbgui.GAlignFrame
|
0.567556.7%
|
|
|
jalview.util.CaseInsensitiveString
jalview.util.CaseInsensitiveString
|
0.565217456.5%
|
|
|
jalview.io.BioJsHTMLOutput
jalview.io.BioJsHTMLOutput
|
0.5656%
|
|
|
jalview.renderer.ScaleRenderer
jalview.renderer.ScaleRenderer
|
0.5656%
|
|
|
jalview.datamodel.ContactRange
jalview.datamodel.ContactRange
|
0.555555655.6%
|
|
|
jalview.ws2.gui.WebServicesMenuManager
jalview.ws2.gui.WebServicesMenuManager
|
0.551020455.1%
|
|
|
mc_view.PDBChain
mc_view.PDBChain
|
0.5502645455%
|
|
|
jalview.urls.IdOrgSettings
jalview.urls.IdOrgSettings
|
0.5454545654.5%
|
|
|
jalview.ext.jmol.JmolParser
jalview.ext.jmol.JmolParser
|
0.537467753.7%
|
|
|
jalview.gui.ColourMenuHelper
jalview.gui.ColourMenuHelper
|
0.533898353.4%
|
|
|
jalview.util.MessageManager
jalview.util.MessageManager
|
0.5238095552.4%
|
|
|
com.stevesoft.pat.StrPos
com.stevesoft.pat.StrPos
|
0.523255852.3%
|
|
|
jalview.ws.datamodel.alphafold.MappableContactMatrix
jalview.ws.datamodel.alphafold.MappableContactMatrix
|
0.5062761350.6%
|
|
|
jalview.gui.ProgressBar
jalview.gui.ProgressBar
|
0.5034482550.3%
|
|
|
jalview.jbgui.GStructureChooser
jalview.jbgui.GStructureChooser
|
0.5024752650.2%
|
|
|
jalview.viewmodel.ViewportProperties
jalview.viewmodel.ViewportProperties
|
0.550%
|
|
|
mc_view.Bond
mc_view.Bond
|
0.550%
|
|
|
jalview.datamodel.GroupSetHolder
jalview.datamodel.GroupSetHolder
|
0.550%
|
|
|
jalview.schemes.TaylorColourScheme
jalview.schemes.TaylorColourScheme
|
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.bin.argparser.ArgParser
jalview.bin.argparser.ArgParser
|
0.4910179749.1%
|
|
|
jalview.io.AlignFile
jalview.io.AlignFile
|
0.4797297448%
|
|
|
jalview.ws.jws2.MsaWSClient
jalview.ws.jws2.MsaWSClient
|
0.4671052746.7%
|
|
|
jalview.io.StructureFile
jalview.io.StructureFile
|
0.465116346.5%
|
|
|
jalview.ws2.gui.WebServicesMenuManager.InteractiveServiceEntryGroup
jalview.ws2.gui.WebServicesMenuManager.InteractiveServiceEntryGroup
|
0.4579439245.8%
|
|
|
jalview.bin.argparser.ArgValue
jalview.bin.argparser.ArgValue
|
0.447761244.8%
|
|
|
jalview.bin.argparser.ArgValuesMap
jalview.bin.argparser.ArgValuesMap
|
0.446009444.6%
|
|
|
jalview.ws2.actions.annotation.AnnotationAction
jalview.ws2.actions.annotation.AnnotationAction
|
0.4444444544.4%
|
|
|
jalview.bin.ArgsParser
jalview.bin.ArgsParser
|
0.4426229644.3%
|
|
|
jalview.gui.SequenceRenderer
jalview.gui.SequenceRenderer
|
0.4423076844.2%
|
|
|
jalview.ws.jws2.Jws2Discoverer
jalview.ws.jws2.Jws2Discoverer
|
0.4423076844.2%
|
|
|
jalview.gui.AppJmol.RenderPanel
jalview.gui.AppJmol.RenderPanel
|
0.4324324443.2%
|
|
|
jalview.ws2.actions.secstructpred.SecStructPredAction
jalview.ws2.actions.secstructpred.SecStructPredAction
|
0.4285714342.9%
|
|
|
jalview.datamodel.HiddenCursorPosition
jalview.datamodel.HiddenCursorPosition
|
0.4285714342.9%
|
|
|
jalview.analysis.AlignSeq
jalview.analysis.AlignSeq
|
0.4285714342.9%
|
|
|
jalview.ws.params.simple.BooleanOption
jalview.ws.params.simple.BooleanOption
|
0.4242424442.4%
|
|
|
jalview.datamodel.FloatContactMatrix
jalview.datamodel.FloatContactMatrix
|
0.4242%
|
|
|
org.json.JSONTokener
org.json.JSONTokener
|
0.4132841241.3%
|
|
|
jalview.ext.so.SequenceOntology
jalview.ext.so.SequenceOntology
|
0.412541.2%
|
|
|
jalview.datamodel.annotations.AnnotationRowBuilder
jalview.datamodel.annotations.AnnotationRowBuilder
|
0.4102564241%
|
|
|
jalview.structure.StructureImportSettings
jalview.structure.StructureImportSettings
|
0.4102564241%
|
|
|
jalview.io.FileFormats
jalview.io.FileFormats
|
0.440%
|
|
|
jalview.ws.dbsources.EmblSource
jalview.ws.dbsources.EmblSource
|
0.440%
|
|
|
jalview.io.gff.SequenceOntologyFactory
jalview.io.gff.SequenceOntologyFactory
|
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%
|
|
|
org.json.simple.parser.Yylex
org.json.simple.parser.Yylex
|
0.3980891739.8%
|
|
|
jalview.ws.api.ServiceWithParameters
jalview.ws.api.ServiceWithParameters
|
0.3958333439.6%
|
|
|
jalview.log.JalviewAppender
jalview.log.JalviewAppender
|
0.388888938.9%
|
|
|
jalview.util.Comparison
jalview.util.Comparison
|
0.3858267738.6%
|
|
|
jalview.io.FileLoader
jalview.io.FileLoader
|
0.3841463338.4%
|
|
|
jalview.datamodel.AlignmentAnnotation
jalview.datamodel.AlignmentAnnotation
|
0.3833528838.3%
|
|
|
jalview.gui.AlignViewport
jalview.gui.AlignViewport
|
0.3810623638.1%
|
|
|
jalview.ext.jmol.JalviewJmolBinding
jalview.ext.jmol.JalviewJmolBinding
|
0.380566838.1%
|
|
|
jalview.bin.Cache
jalview.bin.Cache
|
0.379403837.9%
|
|
|
jalview.ws.jws2.JabaPreset
jalview.ws.jws2.JabaPreset
|
0.37537.5%
|
|
|
jalview.renderer.ContactGeometry
jalview.renderer.ContactGeometry
|
0.37537.5%
|
|
|
jalview.bin.ApplicationSingletonProvider
jalview.bin.ApplicationSingletonProvider
|
0.37537.5%
|
|
|
jalview.gui.AppJmolBinding
jalview.gui.AppJmolBinding
|
0.3738317837.4%
|
|
|
jalview.bin.argparser.ArgValues
jalview.bin.argparser.ArgValues
|
0.3730158837.3%
|
|
|
jalview.datamodel.ResidueCount
jalview.datamodel.ResidueCount
|
0.372822337.3%
|
|
|
jalview.bin.Commands
jalview.bin.Commands
|
0.3710073837.1%
|
|
|
jalview.util.Format
jalview.util.Format
|
0.3685300436.9%
|
|
|
jalview.datamodel.PDBEntry
jalview.datamodel.PDBEntry
|
0.3633333436.3%
|
|
|
jalview.workers.AlignCalcManager2
jalview.workers.AlignCalcManager2
|
0.3630136836.3%
|
|
|
jalview.ws.datamodel.alphafold.PAEContactMatrix
jalview.ws.datamodel.alphafold.PAEContactMatrix
|
0.3628318636.3%
|
|
|
jalview.io.FastaFile
jalview.io.FastaFile
|
0.3603603536%
|
|
|
jalview.util.HttpUtils
jalview.util.HttpUtils
|
0.3585858635.9%
|
|
|
jalview.ws.jws1.Discoverer
jalview.ws.jws1.Discoverer
|
0.3575757435.8%
|
|
|
jalview.renderer.ContactGeometry.contactInterval
jalview.renderer.ContactGeometry.contactInterval
|
0.3571428735.7%
|
|
|
jalview.datamodel.SequenceFeature
jalview.datamodel.SequenceFeature
|
0.356115135.6%
|
|
|
jalview.jbgui.GStructureChooser.AssociateSeqPanel
jalview.jbgui.GStructureChooser.AssociateSeqPanel
|
0.352941235.3%
|
|
|
jalview.renderer.AnnotationRenderer
jalview.renderer.AnnotationRenderer
|
0.352941235.3%
|
|
|
jalview.viewmodel.styles.ViewStyle
jalview.viewmodel.styles.ViewStyle
|
0.344202934.4%
|
|
|
jalview.datamodel.Annotation
jalview.datamodel.Annotation
|
0.3428571534.3%
|
|
|
jalview.analysis.AAFrequency
jalview.analysis.AAFrequency
|
0.336052233.6%
|
|
|
jalview.ws.jws2.Jws2Client
jalview.ws.jws2.Jws2Client
|
0.3333333433.3%
|
|
|
jalview.datamodel.Sequence
jalview.datamodel.Sequence
|
0.333054433.3%
|
|
|
jalview.gui.JvSwingUtils
jalview.gui.JvSwingUtils
|
0.3310344833.1%
|
|
|
org.json.simple.parser.JSONParser
org.json.simple.parser.JSONParser
|
0.3292079332.9%
|
|
|
jalview.structure.StructureSelectionManager
jalview.structure.StructureSelectionManager
|
0.3256997532.6%
|
|
|
jalview.datamodel.features.SequenceFeatures
jalview.datamodel.features.SequenceFeatures
|
0.3248407532.5%
|
|
|
jalview.viewmodel.AlignmentViewport
jalview.viewmodel.AlignmentViewport
|
0.3245901832.5%
|
|
|
jalview.ws.rest.RestServiceDescription
jalview.ws.rest.RestServiceDescription
|
0.3221649532.2%
|
|
|
com.stevesoft.pat.oneChar
com.stevesoft.pat.oneChar
|
0.3142857331.4%
|
|
|
jalview.renderer.seqfeatures.FeatureColourFinder
jalview.renderer.seqfeatures.FeatureColourFinder
|
0.313725531.4%
|
|
|
jalview.viewmodel.seqfeatures.FeaturesDisplayed
jalview.viewmodel.seqfeatures.FeaturesDisplayed
|
0.312531.2%
|
|
|
jalview.gui.AppJmol
jalview.gui.AppJmol
|
0.3048327330.5%
|
|
|
jalview.viewmodel.ViewportRanges
jalview.viewmodel.ViewportRanges
|
0.3013245230.1%
|
|
|
jalview.gui.AlignmentPanel
jalview.gui.AlignmentPanel
|
0.299894430%
|
|
|
jalview.ws2.actions.hmmer.PhmmerAction
jalview.ws2.actions.hmmer.PhmmerAction
|
0.2941176629.4%
|
|
|
jalview.structures.models.AAStructureBindingModel
jalview.structures.models.AAStructureBindingModel
|
0.2926829229.3%
|
|
|
jalview.datamodel.features.FeatureAttributes.AttributeData
jalview.datamodel.features.FeatureAttributes.AttributeData
|
0.2909090829.1%
|
|
|
jalview.renderer.ResidueShader
jalview.renderer.ResidueShader
|
0.2865853628.7%
|
|
|
jalview.ws.dbsources.EmblCdsSource
jalview.ws.dbsources.EmblCdsSource
|
0.285714328.6%
|
|
|
ext.vamsas.ServiceHandle
ext.vamsas.ServiceHandle
|
0.285714328.6%
|
|
|
jalview.schemes.JalviewColourScheme
jalview.schemes.JalviewColourScheme
|
0.285714328.6%
|
|
|
mc_view.Atom
mc_view.Atom
|
0.282051328.2%
|
|
|
jalview.gui.structurechooser.StructureChooserQuerySource
jalview.gui.structurechooser.StructureChooserQuerySource
|
0.2828%
|
|
|
jalview.io.FileParse
jalview.io.FileParse
|
0.2770083227.7%
|
|
|
jalview.bin.Jalview
jalview.bin.Jalview
|
0.2764753427.6%
|
|
|
jalview.io.IdentifyFile
jalview.io.IdentifyFile
|
0.2737752227.4%
|
|
|
jalview.viewmodel.seqfeatures.FeatureRendererModel
jalview.viewmodel.seqfeatures.FeatureRendererModel
|
0.2660406826.6%
|
|
|
jalview.ws.jws2.SequenceAnnotationWSClient
jalview.ws.jws2.SequenceAnnotationWSClient
|
0.2654867226.5%
|
|
|
jalview.schemes.IdColourScheme
jalview.schemes.IdColourScheme
|
0.2608695626.1%
|
|
|
jalview.datamodel.features.FeatureStore
jalview.datamodel.features.FeatureStore
|
0.2567975825.7%
|
|
|
jalview.structure.StructureCommandsBase
jalview.structure.StructureCommandsBase
|
0.2560975625.6%
|
|
|
jalview.gui.IdCanvas
jalview.gui.IdCanvas
|
0.2524916825.2%
|
|
|
jalview.gui.StructureViewerBase
jalview.gui.StructureViewerBase
|
0.2510822425.1%
|
|
|
org.json.JSONObject.Null
org.json.JSONObject.Null
|
0.2525%
|
|
|
jalview.gui.JalviewChangeSupport
jalview.gui.JalviewChangeSupport
|
0.2525%
|
|
|
jalview.gui.IdwidthAdjuster
jalview.gui.IdwidthAdjuster
|
0.2525%
|
|
|
jalview.schemes.ColourSchemeProperty
jalview.schemes.ColourSchemeProperty
|
0.2525%
|
|
|
jalview.ws.jws2.Jws2ClientFactory
jalview.ws.jws2.Jws2ClientFactory
|
0.24824.8%
|
|
|
jalview.ws.rest.params.Alignment
jalview.ws.rest.params.Alignment
|
0.2435897424.4%
|
|
|
jalview.ws.uimodel.AlignAnalysisUIText
jalview.ws.uimodel.AlignAnalysisUIText
|
0.2424%
|
|
|
jalview.datamodel.SecondaryStructureCount
jalview.datamodel.SecondaryStructureCount
|
0.2382812523.8%
|
|
|
jalview.ws.WSClient
jalview.ws.WSClient
|
0.2352941223.5%
|
|
|
jalview.util.ErrorLog
jalview.util.ErrorLog
|
0.2352941223.5%
|
|
|
jalview.bin.BuildDetails
jalview.bin.BuildDetails
|
0.2352941223.5%
|
|
|
jalview.util.MapList
jalview.util.MapList
|
0.233623.4%
|
|
|
jalview.ws.params.simple.Option
jalview.ws.params.simple.Option
|
0.2333333323.3%
|
|
|
jalview.datamodel.SequenceCursor
jalview.datamodel.SequenceCursor
|
0.2333333323.3%
|
|
|
com.stevesoft.pat.Range
com.stevesoft.pat.Range
|
0.2272727322.7%
|
|
|
com.stevesoft.pat.Bracket
com.stevesoft.pat.Bracket
|
0.22522.5%
|
|
|
jalview.bin.Console
jalview.bin.Console
|
0.2216981222.2%
|
|
|
jalview.gui.ScalePanel
jalview.gui.ScalePanel
|
0.2156862821.6%
|
|
|
jalview.ws.params.simple.IntegerParameter
jalview.ws.params.simple.IntegerParameter
|
0.2142857221.4%
|
|
|
jalview.io.PDBFeatureSettings
jalview.io.PDBFeatureSettings
|
0.2142857221.4%
|
|
|
jalview.util.QuickSort
jalview.util.QuickSort
|
0.2135922321.4%
|
|
|
jalview.analysis.AlignmentAnnotationUtils
jalview.analysis.AlignmentAnnotationUtils
|
0.2076271220.8%
|
|
|
com.stevesoft.pat.Regex
com.stevesoft.pat.Regex
|
0.2072727220.7%
|
|
|
jalview.ws.rest.InputType
jalview.ws.rest.InputType
|
0.2056074720.6%
|
|
|
jalview.datamodel.features.FeatureAttributes
jalview.datamodel.features.FeatureAttributes
|
0.2042253520.4%
|
|
|
jalview.bin.JalviewTaskbar
jalview.bin.JalviewTaskbar
|
0.220%
|
|
|
jalview.gui.AnnotationLabels
jalview.gui.AnnotationLabels
|
0.1988188919.9%
|
|
|
jalview.ws.params.simple.DoubleParameter
jalview.ws.params.simple.DoubleParameter
|
0.1956521719.6%
|
|
|
jalview.structure.StructureMapping
jalview.structure.StructureMapping
|
0.1917098519.2%
|
|
|
jalview.ws.params.simple.StringParameter
jalview.ws.params.simple.StringParameter
|
0.190476219%
|
|
|
jalview.analysis.scoremodels.ScoreModels
jalview.analysis.scoremodels.ScoreModels
|
0.187518.8%
|
|
|
jalview.log.JLogger
jalview.log.JLogger
|
0.1868131918.7%
|
|
|
jalview.fts.core.FTSDataColumnPreferences.FTSDataColumnPrefsTableModel
jalview.fts.core.FTSDataColumnPreferences.FTSDataColumnPrefsTableModel
|
0.1857142918.6%
|
|
|
com.stevesoft.pat.Pattern
com.stevesoft.pat.Pattern
|
0.1805555518.1%
|
|
|
jalview.schemes.TCoffeeColourScheme
jalview.schemes.TCoffeeColourScheme
|
0.1803278618%
|
|
|
jalview.schemes.ColourSchemes
jalview.schemes.ColourSchemes
|
0.1794871817.9%
|
|
|
jalview.schemes.Blosum62ColourScheme
jalview.schemes.Blosum62ColourScheme
|
0.176470617.6%
|
|
|
com.stevesoft.pat.patInt
com.stevesoft.pat.patInt
|
0.17517.5%
|
|
|
jalview.datamodel.Alignment
jalview.datamodel.Alignment
|
0.1748438917.5%
|
|
|
jalview.analysis.AnnotationSorter
jalview.analysis.AnnotationSorter
|
0.1679687516.8%
|
|
|
jalview.util.UserAgent
jalview.util.UserAgent
|
0.1666666716.7%
|
|
|
jalview.ws.jws1.WS1Client
jalview.ws.jws1.WS1Client
|
0.1616%
|
|
|
jalview.gui.Desktop.MyDesktopManager
jalview.gui.Desktop.MyDesktopManager
|
0.1555555615.6%
|
|
|
jalview.fts.core.FTSRestClient
jalview.fts.core.FTSRestClient
|
0.1467181414.7%
|
|
|
jalview.ws.rest.RestClient
jalview.ws.rest.RestClient
|
0.1466666614.7%
|
|
|
jalview.ws.jws2.JabaParamStore
jalview.ws.jws2.JabaParamStore
|
0.1458333314.6%
|
|
|
jalview.gui.PaintRefresher
jalview.gui.PaintRefresher
|
0.1447368414.5%
|
|
|
jalview.gui.Desktop.MyDesktopPane
jalview.gui.Desktop.MyDesktopPane
|
0.1428571514.3%
|
|
|
jalview.io.AppletFormatAdapter
jalview.io.AppletFormatAdapter
|
0.1428571514.3%
|
|
|
jalview.gui.Desktop
jalview.gui.Desktop
|
0.1426978914.3%
|
|
|
jalview.gui.AnnotationPanel
jalview.gui.AnnotationPanel
|
0.1406411514.1%
|
|
|
jalview.ext.jmol.JmolCommands
jalview.ext.jmol.JmolCommands
|
0.1377952713.8%
|
|
|
jalview.util.FileUtils
jalview.util.FileUtils
|
0.1339285713.4%
|
|
|
jalview.workers.AlignCalcWorker
jalview.workers.AlignCalcWorker
|
0.1333333413.3%
|
|
|
jalview.schemes.HmmerGlobalBackground
jalview.schemes.HmmerGlobalBackground
|
0.1333333413.3%
|
|
|
jalview.schemes.PIDColourScheme
jalview.schemes.PIDColourScheme
|
0.1333333413.3%
|
|
|
org.json.JSONObject
org.json.JSONObject
|
0.1322549913.2%
|
|
|
jalview.ws.dbsources.EBIAlfaFold
jalview.ws.dbsources.EBIAlfaFold
|
0.1314878913.1%
|
|
|
jalview.util.Platform
jalview.util.Platform
|
0.1311881213.1%
|
|
|
jalview.datamodel.GroupSet
jalview.datamodel.GroupSet
|
0.1293103412.9%
|
|
|
jalview.ws2.client.jpred4.JPred4WSClient
jalview.ws2.client.jpred4.JPred4WSClient
|
0.1290322512.9%
|
|
|
jalview.gui.AlignFrame
jalview.gui.AlignFrame
|
0.1274264312.7%
|
|
|
jalview.util.StringUtils
jalview.util.StringUtils
|
0.1271186512.7%
|
|
|
jalview.util.ColorUtils
jalview.util.ColorUtils
|
0.1243093912.4%
|
|
|
jalview.ws.rest.params.SeqGroupIndexVector
jalview.ws.rest.params.SeqGroupIndexVector
|
0.12408759412.4%
|
|
|
jalview.bin.argparser.Arg
jalview.bin.argparser.Arg
|
0.12094395612.1%
|
|
|
jalview.io.FormatAdapter
jalview.io.FormatAdapter
|
0.1212%
|
|
|
jalview.structure.StructureCommand
jalview.structure.StructureCommand
|
0.1212%
|
|
|
jalview.ws2.params.SimpleParamDatastore
jalview.ws2.params.SimpleParamDatastore
|
0.11428571511.4%
|
|
|
jalview.gui.PromptUserConfig
jalview.gui.PromptUserConfig
|
0.1136363711.4%
|
|
|
jalview.schemes.RNAHelicesColour
jalview.schemes.RNAHelicesColour
|
0.1095890411%
|
|
|
jalview.log.JLoggerLog4j
jalview.log.JLoggerLog4j
|
0.10679611610.7%
|
|
|
jalview.datamodel.Mapping
jalview.datamodel.Mapping
|
0.10389610410.4%
|
|
|
jalview.gui.StructureChooser
jalview.gui.StructureChooser
|
0.1036789310.4%
|
|
|
jalview.analysis.scoremodels.ScoreMatrix
jalview.analysis.scoremodels.ScoreMatrix
|
0.1028806610.3%
|
|
|
jalview.ws.rest.params.AnnotationFile
jalview.ws.rest.params.AnnotationFile
|
0.10256410410.3%
|
|
|
org.json.JSONArray
org.json.JSONArray
|
0.1010638310.1%
|
|
|
com.stevesoft.pat.parsePerl
com.stevesoft.pat.parsePerl
|
0.098639469.9%
|
|
|
jalview.datamodel.ContactMatrixI
jalview.datamodel.ContactMatrixI
|
0.0970873769.7%
|
|
|
org.json.simple.parser.Yytoken
org.json.simple.parser.Yytoken
|
0.096774199.7%
|
|
|
jalview.io.FileFormat
jalview.io.FileFormat
|
0.0965517249.7%
|
|
|
jalview.fts.service.threedbeacons.TDBeaconsFTSRestClient
jalview.fts.service.threedbeacons.TDBeaconsFTSRestClient
|
0.093759.4%
|
|
|
jalview.gui.StructureViewer
jalview.gui.StructureViewer
|
0.0930232559.3%
|
|
|
jalview.gui.SeqCanvas
jalview.gui.SeqCanvas
|
0.092105269.2%
|
|
|
jalview.util.JSONUtils
jalview.util.JSONUtils
|
0.090909099.1%
|
|
|
jalview.schemes.FeatureColour
jalview.schemes.FeatureColour
|
0.090526319.1%
|
|
|
com.stevesoft.pat.Or
com.stevesoft.pat.Or
|
0.089743599%
|
|
|
jalview.ws2.client.slivka.SlivkaAlignmentWSClient
jalview.ws2.client.slivka.SlivkaAlignmentWSClient
|
0.086956528.7%
|
|
|
jalview.ws.dbsources.Xfam
jalview.ws.dbsources.Xfam
|
0.086956528.7%
|
|
|
jalview.ext.ensembl.EnsemblSequenceFetcher
jalview.ext.ensembl.EnsemblSequenceFetcher
|
0.0833333368.3%
|
|
|
jalview.ws.dbsources.Pdb
jalview.ws.dbsources.Pdb
|
0.081632658.2%
|
|
|
jalview.ws.seqfetcher.DbSourceProxyImpl
jalview.ws.seqfetcher.DbSourceProxyImpl
|
0.081081088.1%
|
|
|
jalview.analysis.AlignmentUtils
jalview.analysis.AlignmentUtils
|
0.078585467.9%
|
|
|
jalview.schemes.HmmerLocalBackground
jalview.schemes.HmmerLocalBackground
|
0.076923087.7%
|
|
|
jalview.schemes.HmmerColourScheme
jalview.schemes.HmmerColourScheme
|
0.076923087.7%
|
|
|
jalview.util.ChannelProperties
jalview.util.ChannelProperties
|
0.075862077.6%
|
|
|
com.stevesoft.pat.OrMark
com.stevesoft.pat.OrMark
|
0.0757.5%
|
|
|
jalview.datamodel.ColumnSelection.IntList
jalview.datamodel.ColumnSelection.IntList
|
0.074766357.5%
|
|
|
com.stevesoft.pat.FastMulti
com.stevesoft.pat.FastMulti
|
0.0740740757.4%
|
|
|
jalview.gui.IdPanel
jalview.gui.IdPanel
|
0.067264576.7%
|
|
|
jalview.util.LaunchUtils
jalview.util.LaunchUtils
|
0.066339076.6%
|
|
|
com.stevesoft.pat.RegOpt
com.stevesoft.pat.RegOpt
|
0.06474826.5%
|
|
|
jalview.schemes.HMMMatchScoreColourScheme
jalview.schemes.HMMMatchScoreColourScheme
|
0.063829796.4%
|
|
|
jalview.analysis.CrossRef
jalview.analysis.CrossRef
|
0.063655036.4%
|
|
|
jalview.datamodel.DBRefEntry
jalview.datamodel.DBRefEntry
|
0.0616438356.2%
|
|
|
jalview.gui.ViewSelectionMenu
jalview.gui.ViewSelectionMenu
|
0.059405945.9%
|
|
|
jalview.fts.service.pdb.PDBFTSRestClient
jalview.fts.service.pdb.PDBFTSRestClient
|
0.0577777775.8%
|
|
|
jalview.ws.seqfetcher.ASequenceFetcher
jalview.ws.seqfetcher.ASequenceFetcher
|
0.0577777775.8%
|
|
|
jalview.workers.InformationThread
jalview.workers.InformationThread
|
0.0555555565.6%
|
|
|
jalview.datamodel.HiddenColumns
jalview.datamodel.HiddenColumns
|
0.0542452825.4%
|
|
|
jalview.ws2.client.slivka.SlivkaAnnotationWSClient
jalview.ws2.client.slivka.SlivkaAnnotationWSClient
|
0.055%
|
|
|
jalview.analysis.GeneticCodes
jalview.analysis.GeneticCodes
|
0.0496894425%
|
|
|
jalview.datamodel.ColumnSelection
jalview.datamodel.ColumnSelection
|
0.044673544.5%
|
|
|
jalview.util.DBRefUtils
jalview.util.DBRefUtils
|
0.044642864.5%
|
|
|
jalview.gui.WsParamSetManager
jalview.gui.WsParamSetManager
|
0.0429447854.3%
|
|
|
org.json.simple.JSONObject
org.json.simple.JSONObject
|
0.037735853.8%
|
|
|
jalview.gui.structurechooser.ThreeDBStructureChooserQuerySource
jalview.gui.structurechooser.ThreeDBStructureChooserQuerySource
|
0.0339943363.4%
|
|
|
jalview.ws.jws1.JPredClient
jalview.ws.jws1.JPredClient
|
0.0310559013.1%
|
|
|
jalview.ws2.client.slivka.SlivkaWSClient
jalview.ws2.client.slivka.SlivkaWSClient
|
0.033%
|
|
|
jalview.datamodel.HiddenSequences
jalview.datamodel.HiddenSequences
|
0.027397262.7%
|
|
|
jalview.schemes.ClustalxColourScheme
jalview.schemes.ClustalxColourScheme
|
0.0254237282.5%
|
|
|
jalview.util.MappingUtils
jalview.util.MappingUtils
|
0.0224948882.2%
|
|
|
jalview.gui.structurechooser.PDBStructureChooserQuerySource
jalview.gui.structurechooser.PDBStructureChooserQuerySource
|
0.017751481.8%
|
|
|
jalview.datamodel.HiddenColumnsCursor
jalview.datamodel.HiddenColumnsCursor
|
0.0156251.6%
|
|
|
jalview.ws.dbsources.Uniprot
jalview.ws.dbsources.Uniprot
|
0.015325671.5%
|
|
|
mc_view.PDBfile
mc_view.PDBfile
|
0.0150375941.5%
|
|
|
jalview.hmmer.HmmerCommand
jalview.hmmer.HmmerCommand
|
0.0141509441.4%
|
|
|
jalview.controller.AlignViewController
jalview.controller.AlignViewController
|
0.0135593221.4%
|
|
|
jalview.gui.SeqPanel
jalview.gui.SeqPanel
|
0.0129954521.3%
|
|
|
jalview.datamodel.SearchResults
jalview.datamodel.SearchResults
|
0.0128205131.3%
|
|
|
jalview.io.SequenceAnnotationReport
jalview.io.SequenceAnnotationReport
|
0.0112359551.1%
|
|
|
jalview.ws2.client.ebi.ParamStores
jalview.ws2.client.ebi.ParamStores
|
0.0102040811%
|
|
|
jalview.ws2.client.ebi.PhmmerWSClient
jalview.ws2.client.ebi.PhmmerWSClient
|
0.0101522841%
|
|
|
jalview.ext.ensembl.EnsemblGene
jalview.ext.ensembl.EnsemblGene
|
0.0081632650.8%
|
|
|
org.json.simple.JSONArray
org.json.simple.JSONArray
|
0.0080645160.8%
|
|
|
jalview.renderer.seqfeatures.FeatureRenderer
jalview.renderer.seqfeatures.FeatureRenderer
|
0.007547170.8%
|
|
|
com.stevesoft.pat.RegRes
com.stevesoft.pat.RegRes
|
0.0072463770.7%
|
|
|
jalview.gui.QuitHandler
jalview.gui.QuitHandler
|
0.00722021660.7%
|
|
|
com.stevesoft.pat.CaseMgr
com.stevesoft.pat.CaseMgr
|
0.00278551530.3%
|
|
|
jalview.schemes.ResidueProperties
jalview.schemes.ResidueProperties
|
0.00103039670.1%
|
|
