/// <summary>
/// Computes Forward probabilities for a given hidden Markov model and a set of observations.
/// </summary>
public static double[,] LogForward <TDistribution>(HiddenMarkovModel <TDistribution> model, double[][] observations, out double logLikelihood)
where TDistribution : IDistribution
{
int T = observations.Length;
int states = model.States;
double[,] lnFwd = new double[T, states];
ForwardBackwardAlgorithm.LogForward <TDistribution>(model, observations, lnFwd);
logLikelihood = Double.NegativeInfinity;
for (int i = 0; i < states; i++)
{
logLikelihood = Special.LogSum(logLikelihood, lnFwd[observations.Length - 1, i]);
}
return(lnFwd);
}
/// <summary>
/// Computes Forward probabilities for a given hidden Markov model and a set of observations.
/// </summary>
public static double[,] Forward <TDistribution>(HiddenMarkovModel <TDistribution> model, double[][] observations, out double logLikelihood)
where TDistribution : IDistribution
{
int T = observations.Length;
double[] coefficients = new double[T];
double[,] fwd = new double[T, model.States];
ForwardBackwardAlgorithm.Forward <TDistribution>(model, observations, coefficients, fwd);
logLikelihood = 0;
for (int i = 0; i < coefficients.Length; i++)
{
logLikelihood += Math.Log(coefficients[i]);
}
return(fwd);
}
/// <summary>
/// Calculates the log-likelihood that this model has generated the given sequence.
/// </summary>
///
/// <remarks>
/// Evaluation problem. Given the HMM M = (A, B, pi) and the observation
/// sequence O = {o1, o2, ..., oK}, calculate the probability that model
/// M has generated sequence O. This can be computed efficiently using the
/// either the Viterbi or the Forward algorithms.
/// </remarks>
///
/// <param name="observations">
/// A sequence of observations.
/// </param>
///
/// <returns>
/// The log-likelihood that the given sequence has been generated by this model.
/// </returns>
///
public double Evaluate(int[] observations)
{
if (observations == null)
{
throw new ArgumentNullException("observations");
}
if (observations.Length == 0)
{
return(Double.NegativeInfinity);
}
// Forward algorithm
double logLikelihood;
// Compute forward probabilities
ForwardBackwardAlgorithm.LogForward(this, observations, out logLikelihood);
// Return the sequence probability
return(logLikelihood);
}
/// <summary>
/// Calculates the probability that this model has generated the given sequence.
/// </summary>
/// <remarks>
/// Evaluation problem. Given the HMM M = (A, B, pi) and the observation
/// sequence O = {o1, o2, ..., oK}, calculate the probability that model
/// M has generated sequence O. This can be computed efficiently using the
/// either the Viterbi or the Forward algorithms.
/// </remarks>
/// <param name="observations">
/// A sequence of observations.
/// </param>
/// <param name="logarithm">
/// True to return the log-likelihood, false to return
/// the likelihood. Default is false.
/// </param>
/// <returns>
/// The probability that the given sequence has been generated by this model.
/// </returns>
public double Evaluate(int[] observations, bool logarithm)
{
if (observations == null)
{
throw new ArgumentNullException("observations");
}
if (observations.Length == 0)
{
return(0.0);
}
// Forward algorithm
double logLikelihood;
// Compute forward probabilities
ForwardBackwardAlgorithm.Forward(this, observations, out logLikelihood);
// Return the sequence probability
return(logarithm ? logLikelihood : System.Math.Exp(logLikelihood));
}
/// <summary>
/// Predicts the next observations occurring after a given observation sequence.
/// </summary>
///
/// <param name="observations">A sequence of observations. Predictions will be made regarding
/// the next observations that should be coming after the last observation in this sequence.</param>
/// <param name="next">The number of observations to be predicted. Default is 1.</param>
/// <param name="logLikelihoods">The log-likelihood of the different symbols for each predicted
/// next observations. In order to convert those values to probabilities, exponentiate the
/// values in the vectors (using the Exp function) and divide each value by their vector's sum.</param>
/// <param name="logLikelihood">The log-likelihood of the given sequence, plus the predicted
/// next observations. Exponentiate this value (use the System.Math.Exp function) to obtain
/// a <c>likelihood</c> value.</param>
///
/// <example>
/// <code source="Unit Tests\Accord.Tests.Statistics\Models\Markov\HiddenMarkovModelTest.cs" region="doc_predict"/>
/// </example>
///
public int[] Predict(int[] observations, int next, out double logLikelihood, out double[][] logLikelihoods)
{
int states = States;
int T = next;
double[][] lnA = LogTransitions;
int[] prediction = new int[next];
logLikelihoods = new double[next][];
try
{
// Compute forward probabilities for the given observation sequence.
double[,] lnFw0 = ForwardBackwardAlgorithm.LogForward(this, observations, out logLikelihood);
// Create a matrix to store the future probabilities for the prediction
// sequence and copy the latest forward probabilities on its first row.
double[,] lnFwd = new double[T + 1, states];
// 1. Initialization
for (int i = 0; i < states; i++)
{
lnFwd[0, i] = lnFw0[observations.Length - 1, i];
}
// 2. Induction
for (int t = 0; t < T; t++)
{
double[] weights = new double[symbols];
for (int s = 0; s < symbols; s++)
{
weights[s] = Double.NegativeInfinity;
for (int i = 0; i < states; i++)
{
double sum = Double.NegativeInfinity;
for (int j = 0; j < states; j++)
{
sum = Special.LogSum(sum, lnFwd[t, j] + lnA[j][i]);
}
lnFwd[t + 1, i] = sum + logB[i][s];
weights[s] = Special.LogSum(weights[s], lnFwd[t + 1, i]);
}
}
double sumWeight = Double.NegativeInfinity;
for (int i = 0; i < weights.Length; i++)
{
sumWeight = Special.LogSum(sumWeight, weights[i]);
}
for (int i = 0; i < weights.Length; i++)
{
weights[i] -= sumWeight;
}
// Select most probable symbol
double maxWeight = weights[0];
prediction[t] = 0;
for (int i = 1; i < weights.Length; i++)
{
if (weights[i] > maxWeight)
{
maxWeight = weights[i];
prediction[t] = i;
}
}
// Recompute log-likelihood
logLikelihoods[t] = weights;
logLikelihood = maxWeight;
}
return(prediction);
}
catch (IndexOutOfRangeException ex)
{
checkObservations(ex, observations);
throw;
}
}
/// <summary>
/// Predicts the next observation occurring after a given observation sequence.
/// </summary>
///
private double[][] predict(double[][] observations, int next,
out double probability, out double[][] future)
{
int states = States;
int T = next;
double[,] A = Transitions;
double logLikelihood;
double[][] prediction = new double[next][];
double[][] expectation = new double[states][];
// Compute expectations for each state
for (int i = 0; i < states; i++)
{
expectation[i] = getMode(B[i]);
}
// Compute forward probabilities for the given observation sequence.
double[,] fw0 = ForwardBackwardAlgorithm.Forward(this, observations, out logLikelihood);
// Create a matrix to store the future probabilities for the prediction
// sequence and copy the latest forward probabilities on its first row.
double[][] fwd = new double[T + 1][];
for (int i = 0; i < fwd.Length; i++)
{
fwd[i] = new double[States];
}
// 1. Initialization
for (int i = 0; i < States; i++)
{
fwd[0][i] = fw0[observations.Length - 1, i];
}
// 2. Induction
for (int t = 0; t < T; t++)
{
double[] weights = fwd[t + 1];
double scale = 0;
for (int i = 0; i < weights.Length; i++)
{
double sum = 0.0;
for (int j = 0; j < states; j++)
{
sum += fwd[t][j] * A[j, i];
}
scale += weights[i] = sum * B[i].ProbabilityFunction(expectation[i]);
}
scale /= Math.Exp(logLikelihood);
if (scale != 0) // Scaling
{
for (int i = 0; i < weights.Length; i++)
{
weights[i] /= scale;
}
}
// Select most probable value
double maxWeight = weights[0];
double sumWeight = maxWeight;
prediction[t] = expectation[0];
for (int i = 1; i < states; i++)
{
if (weights[i] > maxWeight)
{
maxWeight = weights[i];
prediction[t] = expectation[i];
}
}
// Recompute log-likelihood
logLikelihood = Math.Log(maxWeight);
}
// Returns the sequence probability as an out parameter
probability = Math.Exp(logLikelihood);
// Returns the future-forward probabilities
future = fwd;
return(prediction);
}
/// <summary>
/// Predicts the next observation occurring after a given observation sequence.
/// </summary>
///
private TObservation[] predict(TObservation[] observations, int next, out double logLikelihood, out double[][] lnFuture)
{
int states = States;
int T = next;
double[][] lnA = LogTransitions;
TObservation[] prediction = new TObservation[next];
TObservation[] expectation = new TObservation[states];
// Compute expectations for each state
for (int i = 0; i < states; i++)
{
expectation[i] = getMode(B[i]);
}
// Compute forward probabilities for the given observation sequence.
double[,] lnFw0 = ForwardBackwardAlgorithm.LogForward(this, observations, out logLikelihood);
// Create a matrix to store the future probabilities for the prediction
// sequence and copy the latest forward probabilities on its first row.
double[][] lnFwd = new double[T + 1][];
for (int i = 0; i < lnFwd.Length; i++)
{
lnFwd[i] = new double[States];
}
// 1. Initialization
for (int i = 0; i < States; i++)
{
lnFwd[0][i] = lnFw0[observations.Length - 1, i];
}
// 2. Induction
for (int t = 0; t < T; t++)
{
double[] weights = lnFwd[t + 1];
for (int i = 0; i < weights.Length; i++)
{
double sum = Double.NegativeInfinity;
for (int j = 0; j < states; j++)
{
sum = Special.LogSum(sum, lnFwd[t][j] + lnA[j][i]);
}
weights[i] = sum + B[i].LogProbabilityFunction(expectation[i]);
}
double sumWeight = Double.NegativeInfinity;
for (int i = 0; i < weights.Length; i++)
{
sumWeight = Special.LogSum(sumWeight, weights[i]);
}
for (int i = 0; i < weights.Length; i++)
{
weights[i] -= sumWeight;
}
// Select most probable value
double maxWeight = weights[0];
prediction[t] = expectation[0];
for (int i = 1; i < states; i++)
{
if (weights[i] > maxWeight)
{
maxWeight = weights[i];
prediction[t] = expectation[i];
}
}
// Recompute log-likelihood
logLikelihood = maxWeight;
}
// Returns the future-forward probabilities
lnFuture = lnFwd;
return(prediction);
}
/// <summary>
/// Predicts the next observations occurring after a given observation sequence.
/// </summary>
public int[] Predict(int[] observations, int next, bool logarithm,
out double probability, out double[][] probabilities)
{
int states = States;
int T = next;
double[,] A = Transitions;
double logLikelihood;
var prediction = new int[next];
probabilities = new double[next][];
// Compute forward probabilities for the given observation sequence.
double[,] fw0 = ForwardBackwardAlgorithm.Forward(this, observations, out logLikelihood);
// Create a matrix to store the future probabilities for the prediction
// sequence and copy the latest forward probabilities on its first row.
var fwd = new double[T + 1, States];
// 1. Initialization
for (int i = 0; i < States; i++)
{
fwd[0, i] = fw0[observations.Length - 1, i];
}
// 2. Induction
for (int t = 0; t < T; t++)
{
var weights = new double[Symbols];
for (int s = 0; s < Symbols; s++)
{
for (int i = 0; i < states; i++)
{
double sum = 0.0;
for (int j = 0; j < states; j++)
{
sum += fwd[t, j] * A[j, i];
}
fwd[t + 1, i] = sum * B[i, s];
weights[s] += fwd[t + 1, i];
}
weights[s] /= System.Math.Exp(logLikelihood);
if (weights[s] != 0) // Scaling
{
for (int i = 0; i < states; i++)
{
fwd[t + 1, i] /= weights[s];
}
}
}
// Select most probable symbol
double maxWeight = weights[0];
double sumWeight = maxWeight;
for (int i = 1; i < weights.Length; i++)
{
if (weights[i] > maxWeight)
{
maxWeight = weights[i];
prediction[t] = i;
}
sumWeight += weights[i];
}
// Compute and save symbol probabilities
for (int i = 0; i < weights.Length; i++)
{
weights[i] /= sumWeight;
}
probabilities[t] = weights;
// Recompute log-likelihood
logLikelihood = System.Math.Log(maxWeight);
}
// Returns the sequence probability as an out parameter
probability = logarithm ? logLikelihood : System.Math.Exp(logLikelihood);
return(prediction);
}