Uses of Class
de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous.MEMConstraint

Packages that use MEMConstraint

de.jstacs.sequenceScores.statisticalModels.trainable.discrete
de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous	This package contains various inhomogeneous models.

Uses of MEMConstraint in de.jstacs.sequenceScores.statisticalModels.trainable.discrete

Methods in de.jstacs.sequenceScores.statisticalModels.trainable.discrete that return MEMConstraint

static MEMConstraint[]	ConstraintManager.createConstraints(AbstractList<int[]> list, int[] alphabetLength) Creates the constraints of a model
static MEMConstraint[]	ConstraintManager.createConstraints(AbstractList<int[]> list, int[] alphabetLength, int[] indices) Creates the constraints for a part of a model

Uses of MEMConstraint in de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous

Fields in de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous declared as MEMConstraint

protected MEMConstraint[]

MEM.constraints The specific constraints of this MEM.

Methods in de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous that return MEMConstraint

MEMConstraint

MEMConstraint.clone()

Methods in de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous with parameters of type MEMConstraint

void	MEMConstraint.addParameters(int offset, IntList list, MEMConstraint[] constraint, double[] params, int[] start) This method implements a heuristic to modify a constraint if a number of constraints should be delete.
int	MEMConstraint.comparePosition(int offset, MEMConstraint constr) This method computes the number of overlapping positions between the current and the given constraints.
static double	MEMTools.getExpPartOfProb(MEMConstraint[] constraints, int[] fulfilled, SequenceIterator sequence) This method computes the exponential part of the probability, i.e., everything except the normalization constant.
static void	MEMTools.setParametersToValue(MEMConstraint[] constraint, double val) This method is a convenience method that sets the same value for all parameter of the constraints
static double	MEMTools.train(MEMConstraint[] constraints, int[][] cond, SequenceIterator sequence, byte algorithm, TerminationCondition condition, OutputStream stream, int[] alphLen) This method approximates the distribution either analytically or numerically.

Constructors in de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous with parameters of type MEMConstraint

MEMTools.DualFunction(SequenceIterator it, MEMConstraint[] constraints)
The constructor of a dual function.