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T

toIntArray() - Method in class baobab.bio.permutation.TranspositionBlock
Gets a representation of the block as an array of int, with size 3, representing its start, middle and end positions
toString() - Method in class baobab.bio.permutation.ComplexSignedPermutation
 
toString() - Method in class baobab.bio.permutation.Cycle
 
toString() - Method in class baobab.bio.permutation.CyclePartition
 
toString() - Method in class baobab.bio.permutation.Point
 
toString() - Method in class baobab.bio.permutation.ReversalBlock
 
toString() - Method in class baobab.bio.permutation.SignedComponent
 
toString() - Method in class baobab.bio.permutation.SignedCycle
 
toString() - Method in class baobab.bio.permutation.SignedPermutation
 
toString() - Method in class baobab.bio.permutation.SignedReversalBlock
 
toString() - Method in class baobab.bio.permutation.UnsignedPermutation
 
toString(int, int) - Method in class baobab.trace.Trace
Produces a string representation of a trace
toString(int, int, String[]) - Method in class baobab.trace.Trace
Produces a string representation of a trace
toString() - Method in class baobab.trace.Trace
 
toString(byte[]) - Static method in class baobab.trace.TraceUtil
 
toString(String[]) - Static method in class baobab.trace.TraceUtil
 
toString(byte[][]) - Static method in class baobab.trace.TraceUtil
 
toString(byte[][][]) - Static method in class baobab.trace.TraceUtil
 
toString(BitList) - Static method in class baobab.trace.TraceUtil
 
toString(BitList[]) - Static method in class baobab.trace.TraceUtil
 
toString(BitList[][]) - Static method in class baobab.trace.TraceUtil
 
Trace - Class in baobab.trace
The Trace class represents a trace on 1..elementSize.
Trace(byte[], int) - Constructor for class baobab.trace.Trace
Constructs a Trace
Trace(Trace) - Constructor for class baobab.trace.Trace
Constructs a Trace, as a clone of a given trace
TraceCoder - Class in baobab.trace
The TraceCoder class codifies a trace on 1..elementSize.
TraceComparator - Class in baobab.trace
The TraceComparator class represents a comparator of traces
TraceComparator(int, int, int) - Constructor for class baobab.trace.TraceComparator
 
TraceSortedSet - Class in baobab.trace
The TraceSortedSet class represents a set of traces on 1..elementSize (all traces have the same number of elements).
TraceSortedSet(int, int, boolean, int, int, int) - Constructor for class baobab.trace.TraceSortedSet
 
TraceUtil - Class in baobab.trace
 
TraceWidth - Class in baobab.trace
 
TraceWidth() - Constructor for class baobab.trace.TraceWidth
 
transpose(int[], int, int, int) - Static method in class baobab.bio.permutation.PermutationUtil
Make a new permutation, by transposing blocks at the permutation between the specified positions
transposeToNewPermutation(Point, Point, Point) - Method in class baobab.bio.permutation.UnsignedPermutation
Make a new permutation, by transposing the permutation between the specified positions
transposeToNewPermutation(int, int, int) - Method in class baobab.bio.permutation.UnsignedPermutation
Make a new permutation, by transposing the permutation between the specified positions
TranspositionBlock - Class in baobab.bio.permutation
The TranspositionBlock class represents an elementary block of a permutation, given by its start, middle and end points, which can be used as the breakpoints of a transposition
TranspositionBlock(Permutation, Point, Point, Point) - Constructor for class baobab.bio.permutation.TranspositionBlock
Creates a new block
TranspositionBlock(Permutation, int, int, int) - Constructor for class baobab.bio.permutation.TranspositionBlock
Creates a new block

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