Uses of Interface
org.snpeff.interval.tree.Itree
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Packages that use Itree Package Description org.snpeff.interval.tree org.snpeff.snpEffect.testCases.unity -
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Uses of Itree in org.snpeff.interval.tree
Classes in org.snpeff.interval.tree that implement Itree Modifier and Type Class Description class
IntervalTree
An Interval Tree is essentially a map from intervals to objects, which can be queried for all data associated with a particular interval of pointclass
IntervalTreeArray
Interval tree structure using arrays This is slightly faster than the new IntervalTree implementationclass
IntervalTreeOri
An Interval Tree is essentially a map from intervals to objects, which can be queried for all data associated with a particular interval of pointMethods in org.snpeff.interval.tree that return Itree Modifier and Type Method Description Itree
IntervalForest. getOrCreateTree(java.lang.String id)
Get (or create) an interval tree for IDItree
IntervalForest. getOrCreateTreeChromo(java.lang.String chromo)
Get (or create) an interval tree based for "chromo" (chromosome name)Itree
IntervalForest. getTree(java.lang.String key)
Get an interval tree using an IDItree
IntervalForest. getTreeChromo(java.lang.String chromo)
Get an interval tree using a chromosome nameprotected Itree
IntervalForest. newItree()
Create new tree.Methods in org.snpeff.interval.tree that return types with arguments of type Itree Modifier and Type Method Description java.util.Iterator<Itree>
IntervalForest. iterator()
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Uses of Itree in org.snpeff.snpEffect.testCases.unity
Methods in org.snpeff.snpEffect.testCases.unity that return Itree Modifier and Type Method Description protected Itree
TestCasesIntervalTree. newItree(Markers markers)
protected Itree
TestCasesIntervalTreeArray. newItree(Markers markers)
protected Itree
TestCasesIntervalTreeOri. newItree(Markers markers)
Methods in org.snpeff.snpEffect.testCases.unity with parameters of type Itree Modifier and Type Method Description protected int
TestCasesIntervalTree. compareQuery(Marker m, Itree intTree)
Perform a query using 'naive' lookup and interval forest.
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