public HMMGenerator(PatchNames instrument)
{
this.book = new Codebook<Note>();
this.instrument = instrument;
DotNetLearn.Data.SampleSet asdasd;
Accord.Math.Tools.SetupGenerator(10);
// Consider some phrases:
//
string[][] phrases =
{
"The Big Brown Fox Jumps Over the Ugly Dog".Split(new char[]{' '}, StringSplitOptions.RemoveEmptyEntries),
"This is too hot to handle".Split(new char[]{' '}, StringSplitOptions.RemoveEmptyEntries),
"I am flying away like a gold eagle".Split(new char[]{' '}, StringSplitOptions.RemoveEmptyEntries),
"Onamae wa nan desu ka".Split(new char[]{' '}, StringSplitOptions.RemoveEmptyEntries),
"And then she asked, why is it so small?".Split(new char[]{' '}, StringSplitOptions.RemoveEmptyEntries),
"Great stuff John! Now you will surely be promoted".Split(new char[]{' '}, StringSplitOptions.RemoveEmptyEntries),
"Jayne was taken aback when she found out her son was gay".Split(new char[]{' '}, StringSplitOptions.RemoveEmptyEntries),
};
// Let's begin by transforming them to sequence of
// integer labels using a codification codebook:
var codebook = new Codification("Words", phrases);
// Now we can create the training data for the models:
int[][] sequence = codebook.Translate("Words", phrases);
// To create the models, we will specify a forward topology,
// as the sequences have definite start and ending points.
//
var topology = new Forward(states: codebook["Words"].Symbols);
int symbols = codebook["Words"].Symbols; // We have 7 different words
// Create the hidden Markov model
HiddenMarkovModel hmm = new HiddenMarkovModel(topology, symbols);
// Create the learning algorithm
var teacher = new ViterbiLearning(hmm);
// Teach the model about the phrases
double error = teacher.Run(sequence);
// Now, we can ask the model to generate new samples
// from the word distributions it has just learned:
//
List<int> sample = new List<int>();
int count = 10;
sample.Add(hmm.Generate(1)[0]);
while(sample.Count < count)
{
var k = hmm.Predict(sample.ToArray(), 1);
sample.AddRange(k);
}
// And the result will be: "those", "are", "words".
string[] result = codebook.Translate("Words", sample.ToArray());
}
public void LearnTest4()
{
int[][] sequences = new int[][]
{
new int[] { 0, 3, 1 },
new int[] { 0, 2 },
new int[] { 1, 0, 3 },
new int[] { 3, 4 },
new int[] { 0, 1, 3, 5 },
new int[] { 0, 3, 4 },
new int[] { 0, 1, 3, 5 },
new int[] { 0, 1, 3, 5 },
new int[] { 0, 1, 3, 4, 5 },
};
HiddenMarkovModel hmm = new HiddenMarkovModel(3, 6);
var teacher = new ViterbiLearning(hmm) { Iterations = 100, Tolerance = 0 };
double ll = teacher.Run(sequences);
double l0; hmm.Decode(sequences[0], out l0);
double l1; hmm.Decode(sequences[1], out l1);
double l2; hmm.Decode(sequences[2], out l2);
double pl = System.Math.Exp(ll);
double p0 = System.Math.Exp(l0);
double p1 = System.Math.Exp(l1);
double p2 = System.Math.Exp(l2);
Assert.AreEqual(0.078050218613091762, pl, 1e-10);
Assert.AreEqual(0.008509757587448558, p0, 1e-10);
Assert.AreEqual(0.010609567901234561, p1, 1e-10);
Assert.AreEqual(0.008509757587448558, p2, 1e-10);
}
public void LearnTest()
{
HiddenMarkovModel hmm = new HiddenMarkovModel(2, 3);
int[] observation = new int[]
{
0,1,1,2,2,1,1,1,0,0,0,0,0,0,0,0,2,2,0,0,1,1,1,2,0,0,
0,0,0,0,1,2,1,1,1,0,2,0,1,0,2,2,2,0,0,2,0,1,2,2,0,1,
1,2,2,2,0,0,1,1,2,2,0,0,2,2,0,0,1,0,1,2,0,0,0,0,2,0,
2,0,1,1,0,1,0,0,0,1,2,1,1,2,0,2,0,2,2,0,0,1
};
int[] observation2 = new int[]
{
0,1,0,0,2,1,1,0,0,2,1,0,1,1,2,0,1,1,1,0,0,2,0,0,2,1,
1,1,2,0,2,2,1,0,1,2,0,2,1,0,2,1,1,2,0,1,0,1,1,0,1,2,
1,0,2,0,1,0,1,2,0,0,2,0,2,0,0,1,0,0,0,0,1,1,2,2,1,2,
0,1,1,1,2,2,1,1,1,2,2,0,2,1,1,2,0,0,1,1,1,1,1,1,1,0,
0,1,0,1,0,1,0,0,2,0,1,0,2,0,0,0,0,1,1,1,1,1,1,0,2,0,
2,2,1,2,1,2,1,0,2,1,1,2,1,2,1,0,0,2,0,0,2,2,2,0,0,1,
0,1,0,1,0,1,0,0,0,0,0,1,1,1,2,0,0,0,0,0,0,2,2,0,0,0,
0,0,1,0,2,2,2,2,2,1,2,0,1,0,1,2,2,1,0,1,1,2,1,1,1,2,
2,2,0,1,1,1,1,2,1,0,1,0,1,1,0,2,2,2,1,1,1,1,0,2,1,0,
2,1,1,1,2,0,0,1,1,1,1,2,1,1,2,0,0,0,0,0,2,2,2,0,1,1,
1,0,1,0,0,0,0,2,2,2,2,0,1,1,0,1,2,1,2,1,1,0,0,0,0,2,
2,1,1,0,1,0,0,0,0,1,0,0,0,2,0,0,0,2,1,2,2,0,0,0,0,0,
0,2,0,0,2,0,0,0,2,0,1,1,2,2,1,2,1,2,0,0,0,0,2,0,2,0,
1,0,0,2,2,1,2,1,2,2,0,1,1,1,0,0,1,1,1,2,1,0,0,2,0,0,
0,0,1,2,0,0,1,2,0,0,0,2,1,1,1,1,1,2,2,0,0,1,1,1,0,0,
2,0,1,1,0,2,2,0,0,0,1,1,1,1,1,1,2,1,1,0,2,0,0,0,1,1,
1,2,1,0,0,0,1,1,0,1,1,1,0,0,0,1,1,1,2,2,2,0,2,0,2,1,
2,1,0,2,1,2,1,0,0,2,1,1,1,1,0,0,0,1,2,0,2,2,1,2,1,1,
1,0,1,0,0,0,0,2,0,1,1,1,0,2,0,1,0,2,1,2,2,0,2,1,0,0,
2,1,2,2,0,2,1,2,1,2,0,0,0,1,2,1,2,2,1,0,0,0,1,1,2,0,
2,1,0,0,0,1,0,0,1,2,0,0,1,2,2,2,0,1,2,0,1,0,1,0,2,2,
0,2,0,1,1,0,1,1,1,2,2,0,0,0,0,0,1,1,0,0,2,0,0,1,0,0,
1,0,2,1,1,1,1,1,2,0,0,2,0,1,2,0,1,1,1,2,0,0,0,1,2,0,
0,0,2,2,1,1,1,0,1,1,0,2,2,0,1,2,2,1,1,1,2,1,0,2,0,0,
1,1,1,1,1,1,2,1,2,1,0,1,0,2,2,0,1,2,1,1,2,1,0,1,2,1
};
var teacher = new ViterbiLearning(hmm)
{
Iterations = 650,
Tolerance = 0
};
double ll = teacher.Run(observation);
double[] pi = { 0.66, 0.33 };
double[,] A =
{
{ 0.99, 0.01 },
{ 0.50, 0.50 }
};
double[,] B =
{
{ 0.44, 0.27, 0.28 },
{ 0.33, 0.33, 0.33 }
};
var hmmA = Matrix.Exp(hmm.Transitions);
var hmmB = Matrix.Exp(hmm.Emissions);
var hmmP = Matrix.Exp(hmm.Probabilities);
Assert.IsTrue(Matrix.IsEqual(A, hmmA, 0.1));
Assert.IsTrue(Matrix.IsEqual(B, hmmB, 0.1));
Assert.IsTrue(Matrix.IsEqual(pi, hmmP, 0.1));
}
public void LearnTest6()
{
// We will try to create a Hidden Markov Model which
// can detect if a given sequence starts with a zero
// and has any number of ones after that.
int[][] sequences = new int[][]
{
new int[] { 0,1,1,1,1,0,1,1,1,1 },
new int[] { 0,1,1,1,0,1,1,1,1,1 },
new int[] { 0,1,1,1,1,1,1,1,1,1 },
new int[] { 0,1,1,1,1,1 },
new int[] { 0,1,1,1,1,1,1 },
new int[] { 0,1,1,1,1,1,1,1,1,1 },
new int[] { 0,1,1,1,1,1,1,1,1,1 },
};
// Creates a new Hidden Markov Model with 3 states for
// an output alphabet of two characters (zero and one)
HiddenMarkovModel hmm = new HiddenMarkovModel(new Forward(3), 2);
// Try to fit the model to the data until the difference in
// the average log-likelihood changes only by as little as 0.0001
var teacher = new ViterbiLearning(hmm) { Tolerance = 0.0001, Iterations = 0 };
double ll = teacher.Run(sequences);
// Calculate the probability that the given
// sequences originated from the model
double l1 = hmm.Evaluate(new int[] { 0, 1 }); // 0.613
double l2 = hmm.Evaluate(new int[] { 0, 1, 1, 1 }); // 0.500
// Sequences which do not start with zero have much lesser probability.
double l3 = hmm.Evaluate(new int[] { 1, 1 }); // 0.186
double l4 = hmm.Evaluate(new int[] { 1, 0, 0, 0 }); // 0.003
// Sequences which contains few errors have higher probability
// than the ones which do not start with zero. This shows some
// of the temporal elasticity and error tolerance of the HMMs.
double l5 = hmm.Evaluate(new int[] { 0, 1, 0, 1, 1, 1, 1, 1, 1 }); // 0.033
double l6 = hmm.Evaluate(new int[] { 0, 1, 1, 1, 1, 1, 1, 0, 1 }); // 0.026
double pl = System.Math.Exp(ll);
double p1 = System.Math.Exp(l1);
double p2 = System.Math.Exp(l2);
double p3 = System.Math.Exp(l3);
double p4 = System.Math.Exp(l4);
double p5 = System.Math.Exp(l5);
double p6 = System.Math.Exp(l6);
Assert.AreEqual(1.754393540912413, pl, 1e-6);
Assert.AreEqual(0.61368718756104801, p1, 1e-6);
Assert.AreEqual(0.50049466955818356, p2, 1e-6);
Assert.AreEqual(0.18643340385264684, p3, 1e-6);
Assert.AreEqual(0.00300262431355424, p4, 1e-6);
Assert.AreEqual(0.03338686211012481, p5, 1e-6);
Assert.AreEqual(0.02659161933179825, p6, 1e-6);
Assert.IsTrue(l1 > l3 && l1 > l4);
Assert.IsTrue(l2 > l3 && l2 > l4);
}
public void LearnTest3()
{
// We will try to create a Hidden Markov Model which
// can detect if a given sequence starts with a zero
// and has any number of ones after that.
int[][] sequences = new int[][]
{
new int[] { 0,1,1,1,1,0,1,1,1,1 },
new int[] { 0,1,1,1,0,1,1,1,1,1 },
new int[] { 0,1,1,1,1,1,1,1,1,1 },
new int[] { 0,1,1,1,1,1 },
new int[] { 0,1,1,1,1,1,1 },
new int[] { 0,1,1,1,1,1,1,1,1,1 },
new int[] { 0,1,1,1,1,1,1,1,1,1 },
};
// Creates a new Hidden Markov Model with 3 states for
// an output alphabet of two characters (zero and one)
HiddenMarkovModel hmm = new HiddenMarkovModel(new Forward(3), 2);
// Try to fit the model to the data until the difference in
// the average log-likelihood changes only by as little as 0.0001
var teacher = new ViterbiLearning(hmm) { Tolerance = 0.0001, Iterations = 0 };
double ll = teacher.Run(sequences);
// Calculate the probability that the given
// sequences originated from the model
double l1; hmm.Decode(new int[] { 0, 1 }, out l1); // 0.5394
double l2; hmm.Decode(new int[] { 0, 1, 1, 1 }, out l2); // 0.4485
// Sequences which do not start with zero have much lesser probability.
double l3; hmm.Decode(new int[] { 1, 1 }, out l3); // 0.0864
double l4; hmm.Decode(new int[] { 1, 0, 0, 0 }, out l4); // 0.0004
// Sequences which contains few errors have higher probability
// than the ones which do not start with zero. This shows some
// of the temporal elasticity and error tolerance of the HMMs.
double l5; hmm.Decode(new int[] { 0, 1, 0, 1, 1, 1, 1, 1, 1 }, out l5); // 0.0154
double l6; hmm.Decode(new int[] { 0, 1, 1, 1, 1, 1, 1, 0, 1 }, out l6); // 0.0154
ll = System.Math.Exp(ll);
l1 = System.Math.Exp(l1);
l2 = System.Math.Exp(l2);
l3 = System.Math.Exp(l3);
l4 = System.Math.Exp(l4);
l5 = System.Math.Exp(l5);
l6 = System.Math.Exp(l6);
Assert.AreEqual(1.754393540912413, ll, 1e-6);
Assert.AreEqual(0.53946360153256712, l1, 1e-6);
Assert.AreEqual(0.44850249229903377, l2, 1e-6);
Assert.AreEqual(0.08646414524833077, l3, 1e-6);
Assert.AreEqual(0.00041152263374485, l4, 1e-6);
Assert.AreEqual(0.01541807695931400, l5, 1e-6);
Assert.AreEqual(0.01541807695931400, l6, 1e-6);
Assert.IsTrue(l1 > l3 && l1 > l4);
Assert.IsTrue(l2 > l3 && l2 > l4);
}
public void LearnTest9()
{
Accord.Math.Tools.SetupGenerator(0);
var observations = new double[][][]
{
#region example
new double[][]
{
new double[] {2.58825719356537, -6.10018078957452, -3.51826652951428,},
new double[] {1.5637531876564, -8.92844874836103, -9.09330631370717,},
new double[] {2.12242007255554, -14.8117769726059, -9.04211363915664,},
new double[] {0.39045587182045, -10.3548189544216, -7.69608701297759,},
new double[] {-0.553155690431595, -34.9185135663671, 14.6941023804174,},
new double[] {-0.923129916191101, -6.06337512248124, 8.28106954197084,},
new double[] {0.478342920541763, -4.93066650122859, 3.1120912556361,},
},
new double[][]
{
new double[] {1.89824998378754, -8.21581113387553, -7.88790716806936,},
new double[] {2.24453508853912, -10.281886698766, -9.67846789539227,},
new double[] {0.946296751499176, -22.0276392511088, -6.52238763834787,},
new double[] {-0.251136720180511, -13.3010653290676, 8.47499524273859,},
new double[] {-2.35625505447388, -18.1542111199742, 6.25564428645639,},
new double[] {0.200483202934265, -5.48215328147925, 5.88811639894938,},
},
new double[][]
{
new double[] {2.7240589261055, -3.71720542338046, -3.75092324997593,},
new double[] {2.19917744398117, -7.18434871865373, -4.92539999824263,},
new double[] {1.40723958611488, -11.5545592998714, -5.14780194932221,},
new double[] {1.61909088492393, -12.5262932665595, -6.34366687651826,},
new double[] {-2.54745036363602, -8.64924529565274, 4.15127988308386,},
new double[] {0.815489888191223, -33.8531051237431, 4.3954106953589,},
new double[] {-2.2090271115303, -7.17818258102413, 8.9117419130814,},
new double[] {-1.9000232219696, -2.4331659041997, 6.91224717766923,},
},
new double[][]
{
new double[] {4.88746017217636, -4.36384651224969, -5.45526891285354,},
new double[] {1.07786506414413, -12.9399071692788, -5.88248026843442,},
new double[] {2.28888094425201, -15.4017823367163, -9.36490649113217,},
new double[] {-1.16468518972397, -35.4200913138333, 5.44735305966353,},
new double[] {-1.1483296751976, -13.5454911068913, 7.83577905727326,},
new double[] {-2.58188247680664, -1.10149600205281, 10.5928750605715,},
new double[] {-0.277529656887054, -6.96828661824016, 4.59381106840823,},
},
new double[][]
{
new double[] {3.39118540287018, -2.9173207268871, -5.66795398530988,},
new double[] {1.44856870174408, -9.21319243840922, -5.74986260778932,},
new double[] {1.45215392112732, -10.3989582187704, -7.06932768129103,},
new double[] {0.640938431024551, -15.319525165245, -7.68866476960221,},
new double[] {-0.77500119805336, -20.8335910793105, -1.56702420087282,},
new double[] {-3.48337143659592, -18.0461677940976, 12.3393172987974,},
new double[] {-1.17014795541763, -5.59624373275155, 6.09176828712909,},
},
new double[][]
{
new double[] {-3.984335064888, -6.2406475893692, -8.13815178201645,},
new double[] {-2.12110131978989, -5.60649378910647, -7.69551693188544,},
new double[] {-1.62762850522995, -24.1160212319193, -14.9683354815265,},
new double[] {-1.15231424570084, -17.1336790735458, -5.70731951079186,},
new double[] {0.00514835119247437, -35.4256585588532, 11.0357975880744,},
new double[] {0.247226655483246, -4.87705331087666, 8.47028869639136,},
new double[] {-1.28729045391083, -4.4684855254196, 4.45432778840328,},
},
new double[][]
{
new double[] {-5.14926165342331, -14.4168633009146, -14.4808205022332,},
new double[] {-3.93681302666664, -13.6040611430423, -9.52852874304709,},
new double[] {-4.0200162678957, -17.9772444010218, -10.9145425003168,},
new double[] {2.99205146729946, -11.3995995445577, 10.0112700536762,},
new double[] {-1.80960297584534, -25.9626088707583, 3.84153700324761,},
new double[] {-0.47445073723793, -3.15995343875038, 3.81288679772555,},
},
new double[][]
{
new double[] {-3.10730338096619, -4.90623566171983, -7.71155001801384,},
new double[] {-2.58265435695648, -12.8249488039327, -7.81701695282102,},
new double[] {-3.70455086231232, -10.9642675851383, -10.3474496036822,},
new double[] {2.34457105398178, -22.575668228196, -4.00681935468317,},
new double[] {-0.137023627758026, -22.8846781066673, 6.49448229892285,},
new double[] {-1.04487389326096, -10.8106353197974, 6.89123118904132,},
new double[] {-0.807777792215347, -6.72485967042486, 6.44026679233423,},
new double[] {-0.0864192843437195, -1.82784244477527, 5.21446167464657,},
},
new double[][]
{
new double[] {-3.68375554680824, -8.91158395500054, -9.35894038244743,},
new double[] {-3.42774018645287, -8.90966793048099, -12.0502934183779,},
new double[] {-2.21796408295631, -20.1283824753482, -9.3404551995806,},
new double[] {0.275979936122894, -24.8898254667703, -1.95441472953041,},
new double[] {2.8757631778717, -25.5929744730134, 15.9213204397452,},
new double[] {-0.0532664358615875, -5.41014381829368, 7.0702071664098,},
new double[] {-0.523447245359421, -2.21351362388411, 5.47910029515575,},
},
new double[][]
{
new double[] {-2.87790596485138, -4.67335526533981, -5.23215633615683,},
new double[] {-2.4156779050827, -3.99829080603495, -4.85576151355235,},
new double[] {-2.6987336575985, -7.76589206730162, -5.81054787011341,},
new double[] {-2.65482440590858, -10.5628263066491, -5.60468502395908,},
new double[] {-2.54620611667633, -13.0387387107748, -5.36223367466908,},
new double[] {-0.349991768598557, -6.54244110985515, -4.35843018634009,},
new double[] {1.43021196126938, -14.1423935327282, 11.3171592025544,},
new double[] {-0.248833745718002, -25.6880129237476, 3.6943247495434,},
new double[] {-0.191526114940643, -7.40986142342928, 5.01053017361167,},
new double[] {0.0262223184108734, -2.32355649224634, 5.02960958030255,},
},
new double[][]
{
new double[] {-0.491838902235031, -6.14010393559236, 0.827477332024586,},
new double[] {-0.806065648794174, -7.15029676810841, -1.19623376104369,},
new double[] {-0.376655906438828, -8.79062775480082, -1.90518908829517,},
new double[] {0.0747844576835632, -8.78933441325732, -1.96265207353993,},
new double[] {-0.375023484230042, 3.89681155173501, 9.01643231817069,},
new double[] {-2.8106614947319, -11.460008093918, 2.27801912994775,},
new double[] {8.87353122234344, -36.8569805718597, 6.36432395690119,},
new double[] {2.17160433530808, -6.57312981892095, 6.99683358454453,},
},
new double[][]
{
new double[] {-2.59969010949135, -3.67992698430228, 1.09594294144671,},
new double[] {-1.09673067927361, -5.84256216502719, -0.576662929456575,},
new double[] {-1.31642892956734, -7.75851355520771, -2.38379618379558,},
new double[] {-0.119869410991669, -8.5749576027529, -1.84393133510667,},
new double[] {1.6157403588295, -8.50491836461337, 1.75083250596366,},
new double[] {1.66225507855415, -26.4882911957686, 1.98153904369032,},
new double[] {2.55657434463501, -10.5098938623168, 11.632377227365,},
new double[] {1.91832333803177, -9.98753621777953, 7.38483383044985,},
new double[] {2.16058492660522, -2.7784029746222, 7.8378896386686,},
},
#endregion
};
var density = new MultivariateNormalDistribution(3);
var model = new HiddenMarkovModel<MultivariateNormalDistribution>(new Forward(5), density);
var learning = new ViterbiLearning<MultivariateNormalDistribution>(model)
{
Tolerance = 0.0001,
Iterations = 0,
FittingOptions = new NormalOptions() { Regularization = 0.0001 }
};
double logLikelihood = learning.Run(observations);
Assert.IsFalse(Double.IsNaN(logLikelihood));
foreach (double value in model.Transitions)
Assert.IsFalse(Double.IsNaN(value));
foreach (double value in model.Probabilities)
Assert.IsFalse(Double.IsNaN(value));
}
public void LearnTest8()
{
Accord.Math.Tools.SetupGenerator(0);
// Create continuous sequences. In the sequence below, there
// seems to be two states, one for values equal to 1 and another
// for values equal to 2.
double[][] sequences = new double[][]
{
new double[] { 1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2,1,2 }
};
// Specify a initial normal distribution for the samples.
var density = new NormalDistribution();
// Creates a continuous hidden Markov Model with two states organized in a forward
// topology and an underlying univariate Normal distribution as probability density.
var model = new HiddenMarkovModel<NormalDistribution>(new Forward(2), density);
// Configure the learning algorithms to train the sequence classifier until the
// difference in the average log-likelihood changes only by as little as 0.0001
var teacher = new ViterbiLearning<NormalDistribution>(model)
{
Tolerance = 0.0001,
Iterations = 0,
// However, we will need to specify a regularization constant as the
// variance of each state will likely be zero (all values are equal)
FittingOptions = new NormalOptions() { Regularization = double.Epsilon }
};
// Fit the model
double likelihood = teacher.Run(sequences);
// See the probability of the sequences learned
double a1 = model.Evaluate(new double[] { 1, 2, 1, 2, 1, 2, 1, 2, 1 }); // exp(a1) = infinity
double a2 = model.Evaluate(new double[] { 1, 2, 1, 2, 1 }); // exp(a2) = infinity
// See the probability of an unrelated sequence
double a3 = model.Evaluate(new double[] { 1, 2, 3, 2, 1, 2, 1 }); // exp(a3) = 0
double a4 = model.Evaluate(new double[] { 1.1, 2.2, 1.3, 3.2, 4.2, 1.0 }); // exp(a4) = 0
Assert.AreEqual(double.PositiveInfinity, System.Math.Exp(likelihood));
Assert.AreEqual(3340.6878090199571, a1);
Assert.AreEqual(1855.791720669667, a2);
Assert.AreEqual(0.0, Math.Exp(a3));
Assert.AreEqual(0.0, Math.Exp(a4));
Assert.AreEqual(2, model.Emissions.Length);
var state1 = (model.Emissions[0] as NormalDistribution);
var state2 = (model.Emissions[1] as NormalDistribution);
Assert.AreEqual(1.0, state1.Mean, 1e-10);
Assert.AreEqual(2.0, state2.Mean, 1e-10);
Assert.IsFalse(Double.IsNaN(state1.Mean));
Assert.IsFalse(Double.IsNaN(state2.Mean));
Assert.IsTrue(state1.Variance < 1e-30);
Assert.IsTrue(state2.Variance < 1e-30);
var A = Matrix.Exp(model.Transitions);
Assert.AreEqual(2, A.GetLength(0));
Assert.AreEqual(2, A.GetLength(1));
Assert.AreEqual(0.0714285714285714, A[0, 0], 1e-6);
Assert.AreEqual(0.9285714285714286, A[0, 1], 1e-6);
Assert.AreEqual(0.9230769230769231, A[1, 0], 1e-6);
Assert.AreEqual(0.0769230769230769, A[1, 1], 1e-6);
}
public void LearnTest2()
{
Accord.Math.Tools.SetupGenerator(0);
double[][][] sequences = new double[500][][];
for (int i = 0; i < sequences.Length; i++)
{
sequences[i] = new double[Accord.Math.Tools.Random.Next(20, 80)][];
int start = Accord.Math.Tools.Random.Next();
for (int j = 0; j < sequences[i].Length; j++)
{
double s = Math.Sin(j + start);
double u = ((s + 1) / 2.0);
sequences[i][j] = new double[] { (int)(u * 10) };
}
}
HiddenMarkovModel<GeneralDiscreteDistribution> hmm1;
double ll1;
{
Accord.Math.Tools.SetupGenerator(0);
hmm1 = HiddenMarkovModel.CreateGeneric(10, 10, true);
var teacher = new ViterbiLearning<GeneralDiscreteDistribution>(hmm1)
{
Iterations = 1,
Tolerance = 1e-15,
Batches = 1,
UseLaplaceRule = true,
FittingOptions = new GeneralDiscreteOptions
{
UseLaplaceRule = true
}
};
ll1 = teacher.Run(sequences);
}
HiddenMarkovModel<GeneralDiscreteDistribution> hmm10;
double ll10;
{
Accord.Math.Tools.SetupGenerator(0);
hmm10 = HiddenMarkovModel.CreateGeneric(10, 10, true);
var teacher = new ViterbiLearning<GeneralDiscreteDistribution>(hmm10)
{
Iterations = 100,
Tolerance = 1e-15,
Batches = 1,
UseLaplaceRule = true,
FittingOptions = new GeneralDiscreteOptions
{
UseLaplaceRule = true
}
};
ll10 = teacher.Run(sequences);
}
Assert.IsTrue(ll10 > ll1);
Assert.IsTrue(Math.Abs(ll1 - ll10) > 10);
// Those results must match the ones in ViterbiLearningTest.
Assert.AreEqual(-33.834836461044411, ll1);
Assert.AreEqual(-23.362967205628703, ll10);
Assert.IsFalse(AreEqual(hmm1, hmm10));
}
public void LearnTest7()
{
Accord.Math.Tools.SetupGenerator(0);
// Create continuous sequences. In the sequences below, there
// seems to be two states, one for values between 0 and 1 and
// another for values between 5 and 7. The states seems to be
// switched on every observation.
double[][] sequences = new double[][]
{
new double[] { 0.1, 5.2, 0.3, 6.7, 0.1, 6.0 },
new double[] { 0.2, 6.2, 0.3, 6.3, 0.1, 5.0 },
new double[] { 0.1, 7.0, 0.1, 7.0, 0.2, 5.6 },
};
// Specify a initial normal distribution for the samples.
var density = new NormalDistribution();
// Creates a continuous hidden Markov Model with two states organized in a forward
// topology and an underlying univariate Normal distribution as probability density.
var model = new HiddenMarkovModel<NormalDistribution>(new Forward(2), density);
// Configure the learning algorithms to train the sequence classifier until the
// difference in the average log-likelihood changes only by as little as 0.0001
var teacher = new ViterbiLearning<NormalDistribution>(model)
{
Tolerance = 0.0001,
Iterations = 0,
};
// Fit the model
double logLikelihood = teacher.Run(sequences);
// See the probability of the sequences learned
double a1 = model.Evaluate(new[] { 0.1, 5.2, 0.3, 6.7, 0.1, 6.0 }); // 0.40
double a2 = model.Evaluate(new[] { 0.2, 6.2, 0.3, 6.3, 0.1, 5.0 }); // 0.46
// See the probability of an unrelated sequence
double a3 = model.Evaluate(new[] { 1.1, 2.2, 1.3, 3.2, 4.2, 1.0 }); // 1.42
double likelihood = Math.Exp(logLikelihood);
a1 = Math.Exp(a1);
a2 = Math.Exp(a2);
a3 = Math.Exp(a3);
Assert.AreEqual(1.5418305348314281, likelihood, 1e-10);
Assert.AreEqual(0.4048936808991913, a1, 1e-10);
Assert.AreEqual(0.4656014344844673, a2, 1e-10);
Assert.AreEqual(1.4232710878429383E-48, a3, 1e-10);
Assert.IsFalse(double.IsNaN(logLikelihood));
Assert.IsFalse(double.IsNaN(a1));
Assert.IsFalse(double.IsNaN(a2));
Assert.IsFalse(double.IsNaN(a3));
Assert.AreEqual(2, model.Emissions.Length);
var state1 = (model.Emissions[0] as NormalDistribution);
var state2 = (model.Emissions[1] as NormalDistribution);
Assert.AreEqual(0.16666666666666, state1.Mean, 1e-10);
Assert.AreEqual(6.11111111111111, state2.Mean, 1e-10);
Assert.IsFalse(Double.IsNaN(state1.Mean));
Assert.IsFalse(Double.IsNaN(state2.Mean));
Assert.AreEqual(0.007499999999999, state1.Variance, 1e-10);
Assert.AreEqual(0.538611111111111, state2.Variance, 1e-10);
Assert.IsFalse(Double.IsNaN(state1.Variance));
Assert.IsFalse(Double.IsNaN(state2.Variance));
Assert.AreEqual(2, model.Transitions.GetLength(0));
Assert.AreEqual(2, model.Transitions.GetLength(1));
var A = Matrix.Exp(model.Transitions);
Assert.AreEqual(0.090, A[0, 0], 1e-3);
Assert.AreEqual(0.909, A[0, 1], 1e-3);
Assert.AreEqual(0.875, A[1, 0], 1e-3);
Assert.AreEqual(0.125, A[1, 1], 1e-3);
Assert.IsFalse(A.HasNaN());
}
public void LearnTest6()
{
Accord.Math.Tools.SetupGenerator(0);
// Continuous Markov Models can operate using any
// probability distribution, including discrete ones.
// In the following example, we will try to create a
// Continuous Hidden Markov Model using a discrete
// distribution to detect if a given sequence starts
// with a zero and has any number of ones after that.
double[][] sequences = new double[][]
{
new double[] { 0,1,1,1,1,0,1,1,1,1 },
new double[] { 0,1,1,1,0,1,1,1,1,1 },
new double[] { 0,1,1,1,1,1,1,1,1,1 },
new double[] { 0,1,1,1,1,1 },
new double[] { 0,1,1,1,1,1,1 },
new double[] { 0,1,1,1,1,1,1,1,1,1 },
new double[] { 0,1,1,1,1,1,1,1,1,1 },
};
// Create a new Hidden Markov Model with 3 states and
// a generic discrete distribution with two symbols
var hmm = HiddenMarkovModel.CreateGeneric(new Forward(3), 2);
// Try to fit the model to the data until the difference in
// the average log-likelihood changes only by as little as 0.0001
var teacher = new ViterbiLearning<GeneralDiscreteDistribution>(hmm)
{
Tolerance = 0.0001,
Iterations = 0,
FittingOptions = new GeneralDiscreteOptions()
{
UseLaplaceRule = true
}
};
double ll = teacher.Run(sequences);
// Calculate the probability that the given
// sequences originated from the model
double l1 = hmm.Evaluate(new double[] { 0, 1 }); // 0.613
double l2 = hmm.Evaluate(new double[] { 0, 1, 1, 1 }); // 0.500
// Sequences which do not start with zero have much lesser probability.
double l3 = hmm.Evaluate(new double[] { 1, 1 }); // 0.186
double l4 = hmm.Evaluate(new double[] { 1, 0, 0, 0 }); // 0.003
// Sequences which contains few errors have higher probability
// than the ones which do not start with zero. This shows some
// of the temporal elasticity and error tolerance of the HMMs.
double l5 = hmm.Evaluate(new double[] { 0, 1, 0, 1, 1, 1, 1, 1, 1 }); // 0.033
double l6 = hmm.Evaluate(new double[] { 0, 1, 1, 1, 1, 1, 1, 0, 1 }); // 0.026
double pl = System.Math.Exp(ll);
double p1 = System.Math.Exp(l1);
double p2 = System.Math.Exp(l2);
double p3 = System.Math.Exp(l3);
double p4 = System.Math.Exp(l4);
double p5 = System.Math.Exp(l5);
double p6 = System.Math.Exp(l6);
Assert.AreEqual(1.754393540912413, pl, 1e-6);
Assert.AreEqual(0.61368718756104801, p1, 1e-6);
Assert.AreEqual(0.50049466955818356, p2, 1e-6);
Assert.AreEqual(0.18643340385264684, p3, 1e-6);
Assert.AreEqual(0.00300262431355424, p4, 1e-6);
Assert.AreEqual(0.03338686211012481, p5, 1e-6);
Assert.AreEqual(0.02659161933179825, p6, 1e-6);
Assert.IsFalse(Double.IsNaN(ll));
Assert.IsFalse(Double.IsNaN(l1));
Assert.IsFalse(Double.IsNaN(l2));
Assert.IsFalse(Double.IsNaN(l3));
Assert.IsFalse(Double.IsNaN(l4));
Assert.IsFalse(Double.IsNaN(l5));
Assert.IsFalse(Double.IsNaN(l6));
Assert.IsTrue(l1 > l3 && l1 > l4);
Assert.IsTrue(l2 > l3 && l2 > l4);
}
public void LearnTest3()
{
double[][] sequences = new double[][]
{
new double[] { 0,1,1,1,1,0,1,1,1,1 },
new double[] { 0,1,1,1,0,1,1,1,1,1 },
new double[] { 0,1,1,1,1,1,1,1,1,1 },
new double[] { 0,1,1,1,1,1 },
new double[] { 0,1,1,1,1,1,1 },
new double[] { 0,1,1,1,1,1,1,1,1,1 },
new double[] { 0,1,1,1,1,1,1,1,1,1 },
};
// Creates a new Hidden Markov Model with 3 states
var hmm = HiddenMarkovModel.CreateGeneric(new Forward(3), 2);
// Try to fit the model to the data until the difference in
// the average log-likelihood changes only by as little as 0.0001
var teacher = new ViterbiLearning<GeneralDiscreteDistribution>(hmm)
{
Tolerance = 0.0001,
Iterations = 0,
FittingOptions = new GeneralDiscreteOptions()
{
UseLaplaceRule = true
}
};
double ll = teacher.Run(sequences);
// Calculate the probability that the given
// sequences originated from the model
double l1; hmm.Decode(new double[] { 0, 1 }, out l1); // 0.4999
double l2; hmm.Decode(new double[] { 0, 1, 1, 1 }, out l2); // 0.1145
double l3; hmm.Decode(new double[] { 1, 1 }, out l3); // 0.0000
double l4; hmm.Decode(new double[] { 1, 0, 0, 0 }, out l4); // 0.0000
double l5; hmm.Decode(new double[] { 0, 1, 0, 1, 1, 1, 1, 1, 1 }, out l5); // 0.0002
double l6; hmm.Decode(new double[] { 0, 1, 1, 1, 1, 1, 1, 0, 1 }, out l6); // 0.0002
ll = System.Math.Exp(ll);
l1 = System.Math.Exp(l1);
l2 = System.Math.Exp(l2);
l3 = System.Math.Exp(l3);
l4 = System.Math.Exp(l4);
l5 = System.Math.Exp(l5);
l6 = System.Math.Exp(l6);
Assert.AreEqual(1.754393540912413, ll, 1e-6);
Assert.AreEqual(0.53946360153256712, l1, 1e-6);
Assert.AreEqual(0.44850249229903377, l2, 1e-6);
Assert.AreEqual(0.08646414524833077, l3, 1e-6);
Assert.AreEqual(0.00041152263374485, l4, 1e-6);
Assert.AreEqual(0.01541807695931400, l5, 1e-6);
Assert.AreEqual(0.01541807695931400, l6, 1e-6);
Assert.IsTrue(l1 > l3 && l1 > l4);
Assert.IsTrue(l2 > l3 && l2 > l4);
Assert.AreEqual(1, hmm.Dimension);
}
public void LearnTest5()
{
double[][][] sequences = new double[][][]
{
new double[][] { new double[] { 0 }, new double[] { 3 }, new double[] { 1 } },
new double[][] { new double[] { 0 }, new double[] { 2 } },
new double[][] { new double[] { 1 }, new double[] { 0 }, new double[] { 3 } },
new double[][] { new double[] { 3 }, new double[] { 4 } },
new double[][] { new double[] { 0 }, new double[] { 1 }, new double[] { 3 }, new double[] { 5 } },
new double[][] { new double[] { 0 }, new double[] { 3 }, new double[] { 4 } },
new double[][] { new double[] { 0 }, new double[] { 1 }, new double[] { 3 }, new double[] { 5 } },
new double[][] { new double[] { 0 }, new double[] { 1 }, new double[] { 3 }, new double[] { 5 } },
new double[][] { new double[] { 0 }, new double[] { 1 }, new double[] { 3 }, new double[] { 4 }, new double[] { 5 } },
};
var hmm = HiddenMarkovModel.CreateGeneric(3, 6);
var teacher = new ViterbiLearning<GeneralDiscreteDistribution>(hmm) { Iterations = 100, Tolerance = 0 };
double ll = teacher.Run(sequences);
double l0; hmm.Decode(sequences[0], out l0);
double l1; hmm.Decode(sequences[1], out l1);
double l2; hmm.Decode(sequences[2], out l2);
double pl = System.Math.Exp(ll);
double p0 = System.Math.Exp(l0);
double p1 = System.Math.Exp(l1);
double p2 = System.Math.Exp(l2);
Assert.AreEqual(0.077427215162407442, pl, 1e-6);
Assert.AreEqual(0.009958847736625515, p0, 1e-6);
Assert.AreEqual(0.006790123456790126, p1, 1e-6);
Assert.AreEqual(0.009958847736625515, p2, 1e-6);
Assert.AreEqual(1, hmm.Dimension);
double[][] sequences2 = new double[][]
{
new double[] { 0, 3, 1 },
new double[] { 0, 2 },
new double[] { 1, 0, 3 },
new double[] { 3, 4 },
new double[] { 0, 1, 3, 5 },
new double[] { 0, 3, 4 },
new double[] { 0, 1, 3, 5 },
new double[] { 0, 1, 3, 5 },
new double[] { 0, 1, 3, 4, 5 },
};
hmm = HiddenMarkovModel.CreateGeneric(3, 6);
teacher = new ViterbiLearning<GeneralDiscreteDistribution>(hmm) { Iterations = 100 };
double ll2 = teacher.Run(sequences2);
double l02; hmm.Decode(sequences2[0], out l02);
double l12; hmm.Decode(sequences2[1], out l12);
double l22; hmm.Decode(sequences2[2], out l22);
Assert.AreEqual(ll, ll2);
Assert.AreEqual(l0, l02);
Assert.AreEqual(l1, l12);
Assert.AreEqual(l2, l22);
Assert.AreEqual(1, hmm.Dimension);
}
public HiddenMarkovModel BuildModel(IList<ISoundSignalReader> signalReaders, string tag,
SignalVisitor visitor = null)
{
var signals = signalReaders; // signals
var signalsCount = signals.Count();
List<List<double[]>> samples = new List<List<double[]>>();
var featureUtility = new FeatureUtility(_engineParameters);
var meanFeaturesLength = 0.0;
for (var signalIndex = 0; signalIndex < signalsCount; signalIndex++)
{
var signal = signals[signalIndex];
signal.Reset();
var allSignalfeatures = featureUtility.ExtractFeatures(signal, visitor).ToArray();
samples.AddRange(allSignalfeatures);
}
var featuresInput = new double[samples.Count][][];
for (var index = 0; index < samples.Count; index++)
{
featuresInput[index] = samples[index].ToArray();
meanFeaturesLength += featuresInput[index].Length;
}
meanFeaturesLength = meanFeaturesLength/samples.Count;
var hmm = new HiddenMarkovModel(_numberOfHiddenStates, _codeBook.Size, false);
List<int[]> observables = new List<int[]>();
for (var signalIndex = 0; signalIndex < featuresInput.Length; signalIndex++) // foreach word signal
{
var points = featuresInput[signalIndex].Select(item => new Point(item)); // convert feature to points
var codeItems = _codeBook.Quantize(points.ToArray());
observables.Add(codeItems);
}
const int iterations = 20000;
const double tolerance = 0.0;
var viterbiLearning = new ViterbiLearning(hmm) {Iterations = iterations, Tolerance = tolerance};
viterbiLearning.Run(observables.ToArray());
var idProp = new IdentificationProperties
{
Class = ClassType.Word,
MeanFeaturesLength = meanFeaturesLength,
Label = tag
};
viterbiLearning.Model.Tag = idProp;
_models[tag] = viterbiLearning.Model;
return viterbiLearning.Model;
}
