|
com.stevesoft.pat.patInf
com.stevesoft.pat.patInf
|
1.0100%
|
|
|
jalview.datamodel.ResidueCount.SymbolCounts
jalview.datamodel.ResidueCount.SymbolCounts
|
1.0100%
|
|
|
jalview.jbgui.GAlignmentPanel
jalview.jbgui.GAlignmentPanel
|
0.979166797.9%
|
|
|
com.stevesoft.pat.Rthings
com.stevesoft.pat.Rthings
|
0.8461538684.6%
|
|
|
jalview.datamodel.Profiles
jalview.datamodel.Profiles
|
0.833333383.3%
|
|
|
jalview.analysis.Conservation
jalview.analysis.Conservation
|
0.822660182.3%
|
|
|
jalview.util.LinkedIdentityHashSet
jalview.util.LinkedIdentityHashSet
|
0.7727272577.3%
|
|
|
jalview.gui.FeatureRenderer
jalview.gui.FeatureRenderer
|
0.7142857371.4%
|
|
|
jalview.util.LinkedIdentityHashSet.IdentityWrapper
jalview.util.LinkedIdentityHashSet.IdentityWrapper
|
0.7142857371.4%
|
|
|
jalview.workers.ConsensusThread
jalview.workers.ConsensusThread
|
0.696969769.7%
|
|
|
jalview.datamodel.Profile
jalview.datamodel.Profile
|
0.6774193667.7%
|
|
|
jalview.analysis.Finder
jalview.analysis.Finder
|
0.672514667.3%
|
|
|
jalview.datamodel.SearchResults
jalview.datamodel.SearchResults
|
0.605769260.6%
|
|
|
jalview.jbgui.GAlignFrame
jalview.jbgui.GAlignFrame
|
0.5788423457.9%
|
|
|
jalview.workers.ConservationThread
jalview.workers.ConservationThread
|
0.568965556.9%
|
|
|
com.stevesoft.pat.oneChar
com.stevesoft.pat.oneChar
|
0.5428571754.3%
|
|
|
com.stevesoft.pat.StrPos
com.stevesoft.pat.StrPos
|
0.550%
|
|
|
jalview.viewmodel.ViewportProperties
jalview.viewmodel.ViewportProperties
|
0.550%
|
|
|
com.stevesoft.pat.wrap.StringWrap
com.stevesoft.pat.wrap.StringWrap
|
0.550%
|
|
|
jalview.schemes.TaylorColourScheme
jalview.schemes.TaylorColourScheme
|
0.550%
|
|
|
jalview.schemes.ZappoColourScheme
jalview.schemes.ZappoColourScheme
|
0.550%
|
|
|
jalview.schemes.PurinePyrimidineColourScheme
jalview.schemes.PurinePyrimidineColourScheme
|
0.550%
|
|
|
jalview.schemes.NucleotideColourScheme
jalview.schemes.NucleotideColourScheme
|
0.550%
|
|
|
jalview.datamodel.SearchResults.Match
jalview.datamodel.SearchResults.Match
|
0.487179548.7%
|
|
|
jalview.io.PfamFile
jalview.io.PfamFile
|
0.484848548.5%
|
|
|
jalview.gui.ColourMenuHelper
jalview.gui.ColourMenuHelper
|
0.4322033843.2%
|
|
|
jalview.datamodel.HiddenCursorPosition
jalview.datamodel.HiddenCursorPosition
|
0.4285714342.9%
|
|
|
jalview.util.ShortcutKeyMaskExWrapper11
jalview.util.ShortcutKeyMaskExWrapper11
|
0.4166666641.7%
|
|
|
jalview.workers.AlignCalcManager
jalview.workers.AlignCalcManager
|
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%
|
|
|
com.stevesoft.pat.FastMulti
com.stevesoft.pat.FastMulti
|
0.388888938.9%
|
|
|
jalview.io.FileFormats
jalview.io.FileFormats
|
0.3636%
|
|
|
jalview.io.AlignFile
jalview.io.AlignFile
|
0.3571428735.7%
|
|
|
jalview.util.MessageManager
jalview.util.MessageManager
|
0.3571428735.7%
|
|
|
jalview.schemes.ResidueColourScheme
jalview.schemes.ResidueColourScheme
|
0.3571428735.7%
|
|
|
jalview.datamodel.ResidueCount
jalview.datamodel.ResidueCount
|
0.339350233.9%
|
|
|
jalview.io.FileLoader
jalview.io.FileLoader
|
0.3233082632.3%
|
|
|
jalview.io.IdentifyFile
jalview.io.IdentifyFile
|
0.3204225332%
|
|
|
jalview.viewmodel.styles.ViewStyle
jalview.viewmodel.styles.ViewStyle
|
0.2929687529.3%
|
|
|
jalview.schemes.JalviewColourScheme
jalview.schemes.JalviewColourScheme
|
0.285714328.6%
|
|
|
jalview.analysis.AAFrequency
jalview.analysis.AAFrequency
|
0.2790697827.9%
|
|
|
jalview.gui.AlignViewport
jalview.gui.AlignViewport
|
0.2725118427.3%
|
|
|
jalview.datamodel.ColumnSelection.IntList
jalview.datamodel.ColumnSelection.IntList
|
0.2616822426.2%
|
|
|
jalview.gui.AlignmentPanel
jalview.gui.AlignmentPanel
|
0.2503225825%
|
|
|
com.stevesoft.pat.Pattern
com.stevesoft.pat.Pattern
|
0.2430555524.3%
|
|
|
jalview.datamodel.VisibleContigsIterator
jalview.datamodel.VisibleContigsIterator
|
0.2340425623.4%
|
|
|
jalview.datamodel.SequenceCursor
jalview.datamodel.SequenceCursor
|
0.2333333323.3%
|
|
|
jalview.viewmodel.AlignmentViewport
jalview.viewmodel.AlignmentViewport
|
0.2136325821.4%
|
|
|
jalview.datamodel.Sequence
jalview.datamodel.Sequence
|
0.2086397120.9%
|
|
|
com.stevesoft.pat.Regex
com.stevesoft.pat.Regex
|
0.200909120.1%
|
|
|
com.stevesoft.pat.patInt
com.stevesoft.pat.patInt
|
0.220%
|
|
|
jalview.util.Comparison
jalview.util.Comparison
|
0.1977401119.8%
|
|
|
jalview.analysis.AnnotationSorter
jalview.analysis.AnnotationSorter
|
0.1818181918.2%
|
|
|
jalview.schemes.IdColourScheme
jalview.schemes.IdColourScheme
|
0.1739130517.4%
|
|
|
jalview.io.FileParse
jalview.io.FileParse
|
0.1726190417.3%
|
|
|
jalview.datamodel.Range
jalview.datamodel.Range
|
0.1666666716.7%
|
|
|
jalview.util.Format
jalview.util.Format
|
0.1490683314.9%
|
|
|
jalview.schemes.TCoffeeColourScheme
jalview.schemes.TCoffeeColourScheme
|
0.1475409914.8%
|
|
|
jalview.gui.PaintRefresher
jalview.gui.PaintRefresher
|
0.1408450814.1%
|
|
|
jalview.datamodel.Alignment
jalview.datamodel.Alignment
|
0.1386430713.9%
|
|
|
jalview.analysis.scoremodels.ScoreModels
jalview.analysis.scoremodels.ScoreModels
|
0.1333333413.3%
|
|
|
jalview.viewmodel.ViewportRanges
jalview.viewmodel.ViewportRanges
|
0.1287128812.9%
|
|
|
jalview.io.FormatAdapter
jalview.io.FormatAdapter
|
0.1237113412.4%
|
|
|
jalview.datamodel.ColumnSelection
jalview.datamodel.ColumnSelection
|
0.1198347112%
|
|
|
jalview.io.FileFormat
jalview.io.FileFormat
|
0.1196581212%
|
|
|
jalview.gui.IdwidthAdjuster
jalview.gui.IdwidthAdjuster
|
0.1190476211.9%
|
|
|
jalview.schemes.Blosum62ColourScheme
jalview.schemes.Blosum62ColourScheme
|
0.1176470611.8%
|
|
|
jalview.gui.JvSwingUtils
jalview.gui.JvSwingUtils
|
0.1156462611.6%
|
|
|
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.gui.ProgressBar
jalview.gui.ProgressBar
|
0.1084337410.8%
|
|
|
jalview.controller.AlignViewController
jalview.controller.AlignViewController
|
0.10629921410.6%
|
|
|
jalview.io.AppletFormatAdapter
jalview.io.AppletFormatAdapter
|
0.1037735910.4%
|
|
|
com.stevesoft.pat.parsePerl
com.stevesoft.pat.parsePerl
|
0.098639469.9%
|
|
|
jalview.workers.AlignCalcWorker
jalview.workers.AlignCalcWorker
|
0.09523819.5%
|
|
|
com.stevesoft.pat.RegOpt
com.stevesoft.pat.RegOpt
|
0.093525189.4%
|
|
|
jalview.util.ColorUtils
jalview.util.ColorUtils
|
0.089385478.9%
|
|
|
jalview.schemes.RNAHelicesColour
jalview.schemes.RNAHelicesColour
|
0.082191788.2%
|
|
|
jalview.schemes.ColourSchemes
jalview.schemes.ColourSchemes
|
0.081632658.2%
|
|
|
com.stevesoft.pat.RegRes
com.stevesoft.pat.RegRes
|
0.079710158%
|
|
|
jalview.datamodel.AlignmentAnnotation
jalview.datamodel.AlignmentAnnotation
|
0.073697597.4%
|
|
|
jalview.gui.AlignFrame
jalview.gui.AlignFrame
|
0.066798426.7%
|
|
|
jalview.schemes.PIDColourScheme
jalview.schemes.PIDColourScheme
|
0.066666676.7%
|
|
|
jalview.gui.AnnotationPanel
jalview.gui.AnnotationPanel
|
0.0635658956.4%
|
|
|
jalview.analysis.CrossRef
jalview.analysis.CrossRef
|
0.063524596.4%
|
|
|
jalview.gui.IdPanel
jalview.gui.IdPanel
|
0.061983476.2%
|
|
|
jalview.analysis.scoremodels.ScoreMatrix
jalview.analysis.scoremodels.ScoreMatrix
|
0.0617283966.2%
|
|
|
jalview.renderer.ResidueShader
jalview.renderer.ResidueShader
|
0.0608695636.1%
|
|
|
jalview.util.Platform
jalview.util.Platform
|
0.059701496%
|
|
|
jalview.gui.ViewSelectionMenu
jalview.gui.ViewSelectionMenu
|
0.059405945.9%
|
|
|
jalview.analysis.GeneticCodes
jalview.analysis.GeneticCodes
|
0.0496894425%
|
|
|
jalview.structure.StructureSelectionManager
jalview.structure.StructureSelectionManager
|
0.04665634.7%
|
|
|
jalview.bin.Cache
jalview.bin.Cache
|
0.039260973.9%
|
|
|
jalview.datamodel.HiddenColumns
jalview.datamodel.HiddenColumns
|
0.0283018872.8%
|
|
|
jalview.util.DBRefUtils
jalview.util.DBRefUtils
|
0.0243902432.4%
|
|
|
jalview.renderer.ResidueColourFinder
jalview.renderer.ResidueColourFinder
|
0.0238095242.4%
|
|
|
jalview.gui.ScalePanel
jalview.gui.ScalePanel
|
0.022641512.3%
|
|
|
jalview.schemes.ClustalxColourScheme
jalview.schemes.ClustalxColourScheme
|
0.0212765952.1%
|
|
|
jalview.gui.IdCanvas
jalview.gui.IdCanvas
|
0.0191570871.9%
|
|
|
jalview.analysis.AlignSeq
jalview.analysis.AlignSeq
|
0.0184842891.8%
|
|
|
jalview.gui.AnnotationLabels
jalview.gui.AnnotationLabels
|
0.0156494531.6%
|
|
|
jalview.datamodel.HiddenColumnsCursor
jalview.datamodel.HiddenColumnsCursor
|
0.0156251.6%
|
|
|
jalview.gui.SequenceRenderer
jalview.gui.SequenceRenderer
|
0.0144230771.4%
|
|
|
jalview.gui.SeqPanel
jalview.gui.SeqPanel
|
0.0132127951.3%
|
|
|
jalview.io.SequenceAnnotationReport
jalview.io.SequenceAnnotationReport
|
0.01302931551.3%
|
|
|
jalview.datamodel.features.SequenceFeatures
jalview.datamodel.features.SequenceFeatures
|
0.0127388541.3%
|
|
|
jalview.datamodel.HiddenSequences
jalview.datamodel.HiddenSequences
|
0.009132420.9%
|
|
|
jalview.gui.Desktop
jalview.gui.Desktop
|
0.0082644620.8%
|
|
|
jalview.bin.Jalview
jalview.bin.Jalview
|
0.0082644620.8%
|
|
|
jalview.gui.SeqCanvas
jalview.gui.SeqCanvas
|
0.0082135530.8%
|
|
|
jalview.renderer.seqfeatures.FeatureRenderer
jalview.renderer.seqfeatures.FeatureRenderer
|
0.0076335880.8%
|
|
|
jalview.renderer.AnnotationRenderer
jalview.renderer.AnnotationRenderer
|
0.00409416570.4%
|
|
|
com.stevesoft.pat.CaseMgr
com.stevesoft.pat.CaseMgr
|
0.00278551530.3%
|
|
