A B C D E F G H I J K L M N O P R S T U V W Y

T

t - Static variable in class jbil.sequence.DNAAlphabet

The atomic 't' symbol

t() - Method in class jbil.sequence.DNAAlphabet

t - Static variable in class jbil.sequence.ExtendedDNAAlphabet

The atomic 'a' symbol

t() - Method in class jbil.sequence.ExtendedDNAAlphabet

testPvalue() - Static method in class jbil.sequence.test.MarkovMotifPvalueTest

testRun() - Static method in class jbil.sequence.test.GibbsMotifSiteSamplerTest

toString(int, int) - Method in class jbil.sequence.ByteArraySequence

toString() - Method in class jbil.sequence.CharSymbol

toString() - Method in class jbil.sequence.Sequence

toString(int, int) - Method in class jbil.sequence.Sequence

Returns the srting representation of a subsequence of this sequence.

toString() - Method in interface jbil.sequence.Symbol

toString(int, int) - Method in class jbil.sequence.SymbolArraySequence

toString() - Method in class jbil.util.JDKRandomStream

Unsupported operation

transitionsTree - Variable in class jbil.sequence.MarkovFixedLengthSequenceModel

Trie - Class in jbil.sequence

Class representing an extended character trie over a given alphabet.

Trie(Alphabet) - Constructor for class jbil.sequence.Trie

Constructs a new trie for representing strings over a given alphabet.

TrieForest - Class in jbil.sequence

Class representing a trie forest.

TrieForest() - Constructor for class jbil.sequence.TrieForest

Creates an empty forest of tries.

trueIndexes(boolean[]) - Static method in class jbil.util.BooleanArrayUtilities

Returns an int array containing the indexes of the true entries of a boolean array.

trueIndexesCount(boolean[]) - Static method in class jbil.util.BooleanArrayUtilities

Counts the true entries of a boolean array.