Hierarchy For All Packages
Package Hierarchies:- edu.msu.cme.rdp.classifier,
- edu.msu.cme.rdp.classifier.cli,
- edu.msu.cme.rdp.classifier.comparison,
- edu.msu.cme.rdp.classifier.io,
- edu.msu.cme.rdp.classifier.rrnaclassifier,
- edu.msu.cme.rdp.classifier.train,
- edu.msu.cme.rdp.classifier.train.validation,
- edu.msu.cme.rdp.classifier.train.validation.crossvalidate,
- edu.msu.cme.rdp.classifier.train.validation.distance,
- edu.msu.cme.rdp.classifier.train.validation.leaveoneout,
- edu.msu.cme.rdp.classifier.train.validation.movingwindow,
- edu.msu.cme.rdp.classifier.utils,
- edu.msu.cme.rdp.multicompare,
- edu.msu.cme.rdp.multicompare.gridware,
- edu.msu.cme.rdp.multicompare.taxon,
- edu.msu.cme.rdp.multicompare.visitors,
- edu.msu.cme.rdp.taxatree,
- edu.msu.cme.rdp.taxatree.utils,
- edu.msu.cme.rdp.unifrac
Class Hierarchy
- java.lang.Object
- java.util.AbstractCollection<E> (implements java.util.Collection<E>)
- java.util.AbstractSet<E> (implements java.util.Set<E>)
- java.util.TreeSet<E> (implements java.lang.Cloneable, java.util.NavigableSet<E>, java.io.Serializable)
- edu.msu.cme.rdp.classifier.comparison.ComparisonResultTreeSet
- edu.msu.cme.rdp.classifier.train.validation.SortedROCSet
- java.util.TreeSet<E> (implements java.lang.Cloneable, java.util.NavigableSet<E>, java.io.Serializable)
- java.util.AbstractSet<E> (implements java.util.Set<E>)
- edu.msu.cme.rdp.classifier.comparison.AbstractNode (implements edu.msu.cme.rdp.classifier.comparison.ComparisonBrowserNode, edu.msu.cme.rdp.classifier.comparison.Taxon)
- edu.msu.cme.rdp.classifier.train.validation.distance.BoxPlotUtils
- edu.msu.cme.rdp.classifier.rrnaclassifier.ClassificationParser
- edu.msu.cme.rdp.classifier.ClassificationResult
- edu.msu.cme.rdp.classifier.io.ClassificationResultFormatter
- edu.msu.cme.rdp.classifier.Classifier
- edu.msu.cme.rdp.classifier.ClassifierCmd
- edu.msu.cme.rdp.classifier.utils.ClassifierFactory
- edu.msu.cme.rdp.multicompare.gridware.ClassifierGridware
- edu.msu.cme.rdp.classifier.cli.ClassifierMain
- edu.msu.cme.rdp.classifier.train.ClassifierTraineeMaker
- edu.msu.cme.rdp.taxatree.utils.ClassifierTreeBuilder<E>
- edu.msu.cme.rdp.classifier.cli.CmdOptions
- edu.msu.cme.rdp.classifier.train.validation.leaveoneout.CompareMisclassified
- edu.msu.cme.rdp.classifier.train.validation.distance.CompareTrainingSets
- edu.msu.cme.rdp.classifier.train.validation.distance.CompareTrainingSets.HierarchyTreeExtend
- edu.msu.cme.rdp.classifier.comparison.ComparisonBrowserBean
- edu.msu.cme.rdp.classifier.comparison.ComparisonCmd
- edu.msu.cme.rdp.classifier.comparison.ComparisonResultTreeSet.ComparisonResultComparator (implements java.util.Comparator<T>)
- edu.msu.cme.rdp.taxatree.ConcretRoot<E>
- edu.msu.cme.rdp.taxatree.UnifracTree
- edu.msu.cme.rdp.classifier.train.CopyNumberParser
- edu.msu.cme.rdp.classifier.train.CopyNumberParser.TaxonCopyNumber
- edu.msu.cme.rdp.classifier.train.validation.CorrectAssignment
- edu.msu.cme.rdp.classifier.train.validation.crossvalidate.CrossValidate
- edu.msu.cme.rdp.classifier.train.validation.crossvalidate.CrossValidateMain
- edu.msu.cme.rdp.classifier.train.validation.DecisionMaker
- org.xml.sax.helpers.DefaultHandler (implements org.xml.sax.ContentHandler, org.xml.sax.DTDHandler, org.xml.sax.EntityResolver, org.xml.sax.ErrorHandler)
- edu.msu.cme.rdp.classifier.io.TreeFileParser
- edu.msu.cme.rdp.multicompare.visitors.DefaultPrintVisitor (implements edu.msu.cme.rdp.taxatree.interfaces.TreeVisitor<E>)
- edu.msu.cme.rdp.multicompare.visitors.EstimateSPrintVisitor (implements edu.msu.cme.rdp.taxatree.interfaces.TreeVisitor<E>)
- edu.msu.cme.rdp.classifier.train.validation.movingwindow.FindWindowFrame
- edu.msu.cme.rdp.classifier.GenusWordConditionalProb
- edu.msu.cme.rdp.classifier.io.GenusWordProbFileParser
- edu.msu.cme.rdp.classifier.HierarchyTree
- edu.msu.cme.rdp.classifier.train.validation.HierarchyTree
- edu.msu.cme.rdp.classifier.utils.HierarchyVersion
- edu.msu.cme.rdp.classifier.train.validation.leaveoneout.LeaveOneOutTester
- edu.msu.cme.rdp.classifier.train.validation.leaveoneout.LeaveOneOutTesterMain
- edu.msu.cme.rdp.classifier.train.LineageSequenceParser
- edu.msu.cme.rdp.classifier.io.LogWordPriorFileParser
- edu.msu.cme.rdp.multicompare.Main
- edu.msu.cme.rdp.classifier.train.validation.movingwindow.MainMovingWindow
- edu.msu.cme.rdp.multicompare.MCSample
- edu.msu.cme.rdp.multicompare.MCSampleResult
- edu.msu.cme.rdp.multicompare.MCSamplePrintUtil
- edu.msu.cme.rdp.multicompare.MergeTaxonCount
- edu.msu.cme.rdp.multicompare.MultiClassifier
- edu.msu.cme.rdp.multicompare.MultiClassifierResult
- edu.msu.cme.rdp.classifier.train.validation.NBClassifier
- edu.msu.cme.rdp.taxatree.Node
- edu.msu.cme.rdp.taxatree.Taxon
- edu.msu.cme.rdp.multicompare.taxon.MCTaxon
- edu.msu.cme.rdp.unifrac.UnifracTaxon
- edu.msu.cme.rdp.multicompare.taxon.MCTaxon
- edu.msu.cme.rdp.taxatree.Taxon
- edu.msu.cme.rdp.classifier.train.validation.distance.PairwiseSeqDistance
- edu.msu.cme.rdp.classifier.comparison.PixelCalculatorBean
- edu.msu.cme.rdp.classifier.io.ProbIndexFileParser
- edu.msu.cme.rdp.classifier.RankAssignment
- edu.msu.cme.rdp.classifier.train.RawGenusWordConditionalProb
- edu.msu.cme.rdp.classifier.train.RawHierarchyTree
- edu.msu.cme.rdp.classifier.train.validation.crossvalidate.RdmSelectTaxon
- edu.msu.cme.rdp.multicompare.Reprocess
- edu.msu.cme.rdp.classifier.comparison.Score
- edu.msu.cme.rdp.classifier.comparison.SeqErrorBean
- edu.msu.cme.rdp.classifier.comparison.SeqInfo
- edu.msu.cme.rdp.readseq.readers.Sequence (implements java.io.Serializable)
- edu.msu.cme.rdp.classifier.utils.ClassifierSequence
- edu.msu.cme.rdp.classifier.train.LineageSequence
- edu.msu.cme.rdp.classifier.comparison.SigCalculator
- edu.msu.cme.rdp.classifier.train.validation.SortedROCSet.PredictionCount
- edu.msu.cme.rdp.classifier.train.validation.SortedROCSet.ResultComparator (implements java.util.Comparator<T>)
- edu.msu.cme.rdp.classifier.train.validation.StatusCount
- edu.msu.cme.rdp.classifier.train.validation.StatusCountUtils
- edu.msu.cme.rdp.classifier.train.validation.distance.TaxaSimilarityMain
- edu.msu.cme.rdp.classifier.train.Taxonomy
- edu.msu.cme.rdp.classifier.train.validation.Taxonomy
- java.lang.Throwable (implements java.io.Serializable)
- java.lang.Exception
- edu.msu.cme.rdp.classifier.train.NameRankDupException
- java.lang.RuntimeException
- java.lang.IllegalArgumentException
- edu.msu.cme.rdp.classifier.ShortSequenceException
- java.lang.IllegalArgumentException
- edu.msu.cme.rdp.classifier.TrainingDataException
- java.lang.Exception
- edu.msu.cme.rdp.classifier.TrainingInfo
- edu.msu.cme.rdp.classifier.train.TreeFactory
- edu.msu.cme.rdp.classifier.train.validation.TreeFactory
- edu.msu.cme.rdp.unifrac.Unifrac
- edu.msu.cme.rdp.taxatree.UnifracTree.UnifracResult
- edu.msu.cme.rdp.unifrac.UnifracTreeBuilder
- edu.msu.cme.rdp.unifrac.UnifracTreeBuilder.UnifracSample
- edu.msu.cme.rdp.classifier.train.validation.ValidationClassificationResult
- edu.msu.cme.rdp.classifier.train.validation.ValidClassificationResultFacade
- edu.msu.cme.rdp.classifier.train.validation.movingwindow.Window
- edu.msu.cme.rdp.classifier.train.validation.movingwindow.WindowTester
- edu.msu.cme.rdp.classifier.comparison.Ztable
- java.util.AbstractCollection<E> (implements java.util.Collection<E>)
Interface Hierarchy
- edu.msu.cme.rdp.taxatree.utils.ClassifierTreeBuilder.ClassifierTaxonFactory<E>
- edu.msu.cme.rdp.classifier.comparison.ComparisonBrowserNode
- edu.msu.cme.rdp.classifier.comparison.Taxon
Enum Hierarchy
- java.lang.Object
- java.lang.Enum<E> (implements java.lang.Comparable<T>, java.io.Serializable)
- edu.msu.cme.rdp.classifier.io.ClassificationResultFormatter.FORMAT
- java.lang.Enum<E> (implements java.lang.Comparable<T>, java.io.Serializable)