public void FunctionTest()
{
Gaussian dense = new Gaussian(3.6);
SparseGaussian target = new SparseGaussian(3.6);
double[] sx = { 1, -0.555556, 2, +0.250000, 3, -0.864407, 4, -0.916667 };
double[] sy = { 1, -0.666667, 2, -0.166667, 3, -0.864407, 4, -0.916667 };
double[] sz = { 1, -0.944444, 3, -0.898305, 4, -0.916667 };
double[] dx = { -0.555556, +0.250000, -0.864407, -0.916667 };
double[] dy = { -0.666667, -0.166667, -0.864407, -0.916667 };
double[] dz = { -0.944444, +0.000000, -0.898305, -0.916667 };
double expected, actual;
expected = dense.Function(dx, dy);
actual = target.Function(sx, sy);
Assert.AreEqual(expected, actual);
expected = dense.Function(dx, dz);
actual = target.Function(sx, sz);
Assert.AreEqual(expected, actual);
expected = dense.Function(dy, dz);
actual = target.Function(sy, sz);
Assert.AreEqual(expected, actual);
}
public void FunctionTest_EqualInputs()
{
var x = new double[] { 1, 2, 5, 1 };
var y = new double[] { 1, 2, 5, 1 };
var target = new Gaussian <DynamicTimeWarping>(new DynamicTimeWarping(1), 4.2);
double expected = target.Function(x, y);
double actual = target.Function(x, x);
Assert.AreEqual(expected, actual, 0.000001);
}
public void FunctionTest_EqualInputs()
{
var x = new double[] { 1, 2, 5, 1 };
var y = new double[] { 1, 2, 5, 1 };
var target = new Gaussian <Linear>(new Linear(1), 4.2);
double expected = target.Function(x, y);
double actual = target.Function(x, x);
Assert.AreEqual(expected, actual);
}
public void KernelFunctionCacheConstructorTest6()
{
IKernel kernel = new Gaussian(0.6);
int cacheSize = inputs.Length;
KernelFunctionCache target = new KernelFunctionCache(kernel, inputs, cacheSize);
Assert.AreEqual(10, target.Size);
Assert.AreEqual(0, target.Hits);
Assert.AreEqual(0, target.Misses);
Assert.IsTrue(target.Enabled);
for (int i = 0; i < inputs.Length; i++)
{
double expected = kernel.Function(inputs[i], inputs[i]);
double actual = target.GetOrCompute(i);
Assert.AreEqual(expected, actual);
}
Assert.AreEqual(0, target.Hits);
for (int i = 0; i < inputs.Length; i++)
{
for (int j = 0; j < inputs.Length; j++)
{
double expected = kernel.Function(inputs[i], inputs[j]);
double actual = target.GetOrCompute(i, j);
Assert.AreEqual(expected, actual);
}
}
for (int i = 0; i < inputs.Length; i++)
{
for (int j = 0; j < inputs.Length; j++)
{
double expected = kernel.Function(inputs[i], inputs[j]);
double actual = target.GetOrCompute(i, j);
Assert.AreEqual(expected, actual);
}
}
Assert.AreEqual(0, target.Misses);
Assert.AreEqual(0, target.Hits);
Assert.AreEqual(0, target.Usage);
}
public void FunctionTest()
{
double sigma = 0.1;
var target = new Gaussian<Linear>(new Linear(0), sigma);
double[] x = { 2.0, 3.1, 4.0 };
double[] y = { 2.0, 3.1, 4.0 };
double expected = 1;
double actual;
actual = target.Function(x, y);
Assert.AreEqual(expected, actual);
actual = target.Function(x, x);
Assert.AreEqual(expected, actual);
actual = target.Function(y, y);
Assert.AreEqual(expected, actual);
}
public void FunctionTest2()
{
// Tested against R's kernlab
double[][] data =
{
new double[] { 5.1, 3.5, 1.4, 0.2 },
new double[] { 5.0, 3.6, 1.4, 0.2 },
new double[] { 4.9, 3.0, 1.4, 0.2 },
new double[] { 5.8, 4.0, 1.2, 0.2 },
new double[] { 4.7, 3.2, 1.3, 0.2 },
};
// rbf <- rbfdot(sigma = 1)
// R's sigma is framework's Gaussian's gamma:
Gaussian kernel = new Gaussian()
{
Gamma = 1
};
// Compute the kernel matrix
double[,] actual = new double[5, 5];
for (int i = 0; i < 5; i++)
{
for (int j = 0; j < 5; j++)
{
actual[i, j] = kernel.Function(data[i], data[j]);
}
}
double[,] expected =
{
{ 1.0000000, 0.9801987, 0.7482636, 0.4584060, 0.7710516 },
{ 0.9801987, 1.0000000, 0.6907343, 0.4317105, 0.7710516 },
{ 0.7482636, 0.6907343, 1.0000000, 0.1572372, 0.9139312 },
{ 0.4584060, 0.4317105, 0.1572372, 1.0000000, 0.1556726 },
{ 0.7710516, 0.7710516, 0.9139312, 0.1556726, 1.0000000 },
};
// Assert both are equal
for (int i = 0; i < 5; i++)
{
for (int j = 0; j < 5; j++)
{
Assert.AreEqual(expected[i, j], actual[i, j], 1e-6);
}
}
}
public void rbf_kernel()
{
#region doc_rbf
// Let's say we created a Gaussian RBF kernel:
IRadialBasisKernel rbf = new Gaussian(sigma: 3.6);
// Normally, kernel functions are always defined
// between two points. For example, if we were to
// compute the Gaussian kernel between points
double[] x = { 1, 3 };
double[] y = { 4, 2 };
// The most straightforward way would be to use
double k = rbf.Function(x, y); // should be 0.6799048146023815
// However, since this kernel is a RBF, it means we
// can also compute its kernel function through the
// Euclidean distance between the two points:
double z = Distance.Euclidean(x, y);
double a = rbf.Function(z); // should also be 0.6799048146023815
#endregion
Assert.AreEqual(k, a);
}
public void FunctionTest2()
{
double[][] data =
{
new double[] { 5.1, 3.5, 1.4, 0.2 },
new double[] { 5.0, 3.6, 1.4, 0.2 },
new double[] { 4.9, 3.0, 1.4, 0.2 },
new double[] { 5.8, 4.0, 1.2, 0.2 },
new double[] { 4.7, 3.2, 1.3, 0.2 },
};
var kernel = new Gaussian <SquareEuclidean>(new SquareEuclidean())
{
Gamma = 1
};
// Compute the kernel matrix
double[,] actual = new double[5, 5];
for (int i = 0; i < 5; i++)
{
for (int j = 0; j < 5; j++)
{
actual[i, j] = kernel.Function(data[i], data[j]);
}
}
double[,] expected =
{
{ 1.0000000, 0.9801987, 0.7482636, 0.4584060, 0.7710516 },
{ 0.9801987, 1.0000000, 0.6907343, 0.4317105, 0.7710516 },
{ 0.7482636, 0.6907343, 1.0000000, 0.1572372, 0.9139312 },
{ 0.4584060, 0.4317105, 0.1572372, 1.0000000, 0.1556726 },
{ 0.7710516, 0.7710516, 0.9139312, 0.1556726, 1.0000000 },
};
// Assert both are equal
for (int i = 0; i < 5; i++)
{
for (int j = 0; j < 5; j++)
{
Assert.AreEqual(expected[i, j], actual[i, j], 1e-6);
}
}
}
public void doc_test_generic()
{
#region doc_distance_generic
// Let's say we would like to create a composite Gaussian
// kernel based on a Hamming distance defined for strings:
var gaussian = new Gaussian <Hamming, string>(new Hamming(), sigma: 4.2);
string x = "abba";
string y = "aaab";
// Now, we can compute the kernel function as:
double k = gaussian.Function(x, y); // 0.8436074263840595
// We can also obtain the distance in kernel space as:
double d = gaussian.Distance(x, y); // 0.312785147231881
#endregion
Assert.AreEqual(0.8436074263840595, k, 1e-10);
Assert.AreEqual(0.312785147231881, d, 1e-10);
}
public void doc_test_generic()
{
#region doc_kernel_generic
// Let's say we would like to create a composite Gaussian
// kernel based on the String Subsequence Kernel (SSK):
var gaussian = new Gaussian <StringSubsequence, string>(
new StringSubsequence(k: 2), sigma: 4.2);
string x = "abba";
string y = "aaab";
// Now, we can compute the kernel function as:
double k = gaussian.Function(x, y); // 0.97588765410825273
// We can also obtain the distance in kernel space as:
double d = gaussian.Distance(x, y); // 0.048224691783494533
#endregion
Assert.AreEqual(0.97588765410825273, k, 1e-10);
Assert.AreEqual(0.048224691783494533, d, 1e-10);
}
public void GaussianFunctionTest()
{
var x = new double[] { 0, 4, 2, 1 };
var y = new double[] { 3, 2, };
var dtw = new DynamicTimeWarping(1);
IKernel gaussian = new Gaussian <DynamicTimeWarping>(dtw, 1);
double actual = gaussian.Function(x, y);
Assert.AreEqual(0.3407192298459587, actual);
gaussian = new Gaussian <DynamicTimeWarping>(dtw, 11.5);
x = new double[] { 0.2, 5 };
y = new double[] { 3, 0.7 };
actual = gaussian.Function(x, y);
Assert.AreEqual(0.99065918303292089, actual);
}
public void GaussianFunctionTest()
{
IKernel gaussian = new Gaussian <Linear>(new Linear(0), 1);
double[] x = { 1, 1 };
double[] y = { 1, 1 };
double actual = gaussian.Function(x, y);
double expected = 1;
Assert.AreEqual(expected, actual);
gaussian = new Gaussian(11.5);
x = new double[] { 0.2, 5 };
y = new double[] { 3, 0.7 };
actual = gaussian.Function(x, y);
expected = 0.9052480234;
Assert.AreEqual(expected, actual, 1e-10);
}
public void doc_test()
{
#region doc_kernel
// Let's say we would like to create a composite Gaussian kernel
// based on an underlying Polynomial kernel of the second degree
var gaussian = new Gaussian <Polynomial>(new Polynomial(degree: 2), sigma: 4.2);
double[] x = { 2, 4 };
double[] y = { 1, 3 };
// Now, we can compute the kernel function as:
double k = gaussian.Function(x, y); // 0.041810692337960746
// We can also obtain the distance in kernel space as:
double d = gaussian.Distance(x, y); // 1.9163786153240785
// Whereas the Euclidean distance in input space would be:
double e = Distance.Euclidean(x, y); // 1.4142135623730952
#endregion
Assert.AreEqual(0.041810692337960746, k, 1e-10);
Assert.AreEqual(1.9163786153240785, d, 1e-10);
Assert.AreEqual(1.4142135623730952, e, 1e-10);
}
public void doc_test()
{
#region doc_distance
// Let's say we would like to create a composite
// Gaussian kernel based on an Euclidean distance:
var gaussian = new Gaussian <Euclidean>(new Euclidean(), sigma: 4.2);
double[] x = { 2, 4 };
double[] y = { 1, 3 };
// Now, we can compute the kernel function as:
double k = gaussian.Function(x, y); // 0.96070737352744806
// We can also obtain the distance in kernel space as:
double d = gaussian.Distance(x, y); // 0.078585252945103878
// Whereas the Euclidean distance in input space would be:
double e = Distance.Euclidean(x, y); // 1.4142135623730952
#endregion
Assert.AreEqual(0.96070737352744806, k, 1e-10);
Assert.AreEqual(0.078585252945103878, d, 1e-10);
Assert.AreEqual(1.4142135623730952, e, 1e-10);
}