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

L

length() - Method in class jbil.sequence.ByteArraySequence

length() - Method in interface jbil.sequence.FixedLengthSequenceModel

Returns the length of the modelled sequences.

length() - Method in class jbil.sequence.MarkovFixedLengthSequenceModel

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

length() - Method in class jbil.sequence.SymbolArraySequence

length() - Method in class jbil.sequence.UniformFixedLengthSequenceModel

likelihood(Sequence) - Method in class jbil.sequence.AbstractFixedLengthSequenceModel

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

likelihood(Sequence, int) - Method in interface jbil.sequence.FixedLengthSequenceModel

Returns the likelihod of the subword of the given word starting at beginIndex and with the appropriate length.

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

likelihood(Sequence) - Method in interface jbil.sequence.SequenceModel

Returns the likelihod of the given word under this model.

likelihood(Sequence, int, int) - Method in interface jbil.sequence.SequenceModel

Returns the likelihod of the subword of the given word starting at beginIndex and ending at endIndex-1.

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

likelihoodThreshold(double) - Method in class jbil.sequence.AbstractFixedLengthSequenceModel

likelihoodThreshold(double, SequenceModel) - Method in class jbil.sequence.MarkovFixedLengthSequenceModel

likelihoodThreshold(double) - Method in interface jbil.sequence.SequenceModel

Computes the likelihood threshold for the given significance with a default null model.

likelihoodThreshold(double, SequenceModel) - Method in interface jbil.sequence.SequenceModel

Given p in [0,1], we define the p-value of p as the as the probability under a null model for a sequence to have a likelihood greater or equal to p.

likelihoodThreshold(double) - Method in class jbil.sequence.UniformFixedLengthSequenceModel

likelihoodThreshold(double, SequenceModel) - Method in class jbil.sequence.UniformFixedLengthSequenceModel

lock() - Method in class jbil.sequence.Alphabet

Lock the alphabet, i.e., forbid any further modification.