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I

incrementDebugNumberOfElements() - Method in class baobab.trace.Trace
 
incrementOccurrences(long) - Method in class baobab.trace.Trace
Increments the number of this trace
intersects(byte[], byte[]) - Static method in class baobab.trace.TraceUtil
 
intersects(BitList, BitList) - Static method in class baobab.trace.TraceUtil
 
isActive() - Method in class baobab.bio.permutation.Cycle
Tests whether this cycle is active (analyzed)
isAdjacency() - Method in class baobab.bio.permutation.Point
Tests whether this point is an adjacency
isAdjacency() - Method in class baobab.bio.permutation.ReversalBlock
Tests whether this block is an adjacency
isAdjacency() - Method in class baobab.bio.permutation.SignedComponent
Tests whether this component is an adjacency
isAdjacency() - Method in class baobab.bio.permutation.SignedPermutation
Tests whether this permutation is sorted
isAdjacency() - Method in class baobab.bio.permutation.UnsignedPermutation
Tests whether this permutation is sorted
isAnalyzed() - Method in class baobab.bio.permutation.Point
Tests whether this point is already analyzed (belongs to an active cycle)
isEmpty() - Method in class baobab.bio.permutation.CyclePartition
Tests whether this cycle partition is empty
isEmpty() - Method in class baobab.trace.Trace
 
isFortress() - Method in class baobab.bio.permutation.ComplexSignedPermutation
Tests whether this permutation is a fortress
isHurdle() - Method in class baobab.bio.permutation.SignedComponent
Tests whether this component is a hurdle
isLinear() - Method in interface baobab.bio.permutation.Permutation
Tests whether the permutation is linear or circular
isLinear() - Method in class baobab.bio.permutation.SignedPermutation
Tests whether the permutation is linear or circular
isLinear() - Method in class baobab.bio.permutation.UnsignedPermutation
Tests whether the permutation is linear or circular
isMaxHurdle() - Method in class baobab.bio.permutation.SignedComponent
Tests whether this component is the maximum hurdle
isNeighborOf(Point) - Method in class baobab.bio.permutation.Point
Tests whether this point is a neighbor of a given point
isOriented() - Method in class baobab.bio.permutation.SignedCycle
Tests whether this block is oriented
isRevertedAt(int) - Method in interface baobab.bio.permutation.Permutation
Gets the value of the element located at a specified position of the permutation
isRevertedAt(int) - Method in class baobab.bio.permutation.SignedPermutation
Gets the value of the element located at a specified position of the permutation
isRevertedAt(int) - Method in class baobab.bio.permutation.UnsignedPermutation
Gets the value of the element located at a specified position of the permutation
isSorted() - Method in interface baobab.bio.permutation.Permutation
 
isSorted() - Method in class baobab.bio.permutation.SignedPermutation
Tests whether this permutation is sorted
isSorted() - Method in class baobab.bio.permutation.UnsignedPermutation
Tests whether this permutation is sorted
isSuperHurdle() - Method in class baobab.bio.permutation.SignedComponent
Tests whether this component is a super hurdle
isValidPermutation(int[], boolean) - Static method in class baobab.bio.permutation.PermutationUtil
Tests whether the permutation is valid

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