tfp.bijectors.CorrelationCholesky

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Maps unconstrained reals to Cholesky-space correlation matrices.

Inherits From: AutoCompositeTensorBijector, Bijector, AutoCompositeTensor

tfp.bijectors.CorrelationCholesky(
    validate_args=False, name='correlation_cholesky'
)

Mathematical Details

This bijector provides a change of variables from unconstrained reals to a parameterization of the CholeskyLKJ distribution. The CholeskyLKJ distribution [1] is a distribution on the set of Cholesky factors of positive definite correlation matrices. The CholeskyLKJ probability density function is obtained from the LKJ density on n x n matrices as follows:

1 = int p(A | eta) dA = int Z(eta) * det(A) ** (eta - 1) dA = int Z(eta) L_ii ** {(n - i - 1) + 2 * (eta - 1)} ^dL_ij (0 <= i < j < n)

where Z(eta) is the normalizer; the matrix L is the Cholesky factor of the correlation matrix A; and ^dL_ij denotes the wedge product (or differential) of the strictly lower triangular entries of L. The entries L_ij are constrained such that each entry lies in [-1, 1] and the norm of each row is

1. The norm includes the diagonal; which is not included in the wedge product. To preserve uniqueness, we further specify that the diagonal entries are positive.

The image of unconstrained reals under the CorrelationCholesky bijector is the set of correlation matrices which are positive definite. A correlation matrix can be characterized as a symmetric positive semidefinite matrix with 1s on the main diagonal.

For a lower triangular matrix L to be a valid Cholesky-factor of a positive definite correlation matrix, it is necessary and sufficient that each row of L have unit Euclidean norm [1]. To see this, observe that if L_i is the ith row of the Cholesky factor corresponding to the correlation matrix R, then the ith diagonal entry of R satisfies:

1 = R_i,i = L_i . L_i = ||L_i||^2

where '.' is the dot product of vectors and ||...|| denotes the Euclidean norm.

Furthermore, observe that R_i,j lies in the interval [-1, 1]. By the Cauchy-Schwarz inequality:

|R_i,j| = |L_i . L_j| <= ||L_i|| ||L_j|| = 1

This is a consequence of the fact that R is symmetric positive definite with 1s on the main diagonal.

We choose the mapping from x in R^{m} to R^{n^2} where m is the (n - 1)th triangular number; i.e. m = 1 + 2 + ... + (n - 1).

L_ij = x_i,j / s_i (for i < j) L_ii = 1 / s_i

where s_i = sqrt(1 + x_i,0^2 + xi,1^2 + ... + x(i,i-1)^2). We can check that the required constraints on the image are satisfied.

Examples

bijector.CorrelationCholesky().forward([2., 2., 1.])
# Result: [[ 1.        ,  0.        ,  0.        ],
           [ 0.70710678,  0.70710678,  0.        ],
           [ 0.66666667,  0.66666667,  0.33333333]]

bijector.CorrelationCholesky().inverse(
    [[ 1.        ,  0.        ,  0. ],
     [ 0.70710678,  0.70710678,  0.        ],
     [ 0.66666667,  0.66666667,  0.33333333]])
# Result: [2., 2., 1.]

References

[1] Stan Manual. Section 24.2. Cholesky LKJ Correlation Distribution. https://mc-stan.org/docs/2_18/functions-reference/cholesky-lkj-correlation-distribution.html [2] Daniel Lewandowski, Dorota Kurowicka, and Harry Joe, "Generating random correlation matrices based on vines and extended onion method," Journal of Multivariate Analysis 100 (2009), pp 1989-2001.

a = tf.Module()
b = tf.Module()
c = tf.Module()
a.b = b
b.c = c
list(a.submodules) == [b, c]
True
list(b.submodules) == [c]
True
list(c.submodules) == []
True

Methods

copy

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copy(
    **override_parameters_kwargs
)

Creates a copy of the bijector.

experimental_batch_shape

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experimental_batch_shape(
    x_event_ndims=None, y_event_ndims=None
)

Returns the batch shape of this bijector for inputs of the given rank.

The batch shape of a bijector decribes the set of distinct transformations it represents on events of a given size. For example: the bijector tfb.Scale([1., 2.]) has batch shape [2] for scalar events (event_ndims = 0), because applying it to a scalar event produces two scalar outputs, the result of two different scaling transformations. The same bijector has batch shape [] for vector events, because applying it to a vector produces (via elementwise multiplication) a single vector output.

Bijectors that operate independently on multiple state parts, such as tfb.JointMap, must broadcast to a coherent batch shape. Some events may not be valid: for example, the bijector tfd.JointMap([tfb.Scale([1., 2.]), tfb.Scale([1., 2., 3.])]) does not produce a valid batch shape when event_ndims = [0, 0], since the batch shapes of the two parts are inconsistent. The same bijector does define valid batch shapes of [], [2], and [3] if event_ndims is [1, 1], [0, 1], or [1, 0], respectively.

Since transforming a single event produces a scalar log-det-Jacobian, the batch shape of a bijector with non-constant Jacobian is expected to equal the shape of forward_log_det_jacobian(x, event_ndims=x_event_ndims) or inverse_log_det_jacobian(y, event_ndims=y_event_ndims), for x or y of the specified ndims.

experimental_batch_shape_tensor

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experimental_batch_shape_tensor(
    x_event_ndims=None, y_event_ndims=None
)

Returns the batch shape of this bijector for inputs of the given rank.

The batch shape of a bijector decribes the set of distinct transformations it represents on events of a given size. For example: the bijector tfb.Scale([1., 2.]) has batch shape [2] for scalar events (event_ndims = 0), because applying it to a scalar event produces two scalar outputs, the result of two different scaling transformations. The same bijector has batch shape [] for vector events, because applying it to a vector produces (via elementwise multiplication) a single vector output.

Bijectors that operate independently on multiple state parts, such as tfb.JointMap, must broadcast to a coherent batch shape. Some events may not be valid: for example, the bijector tfd.JointMap([tfb.Scale([1., 2.]), tfb.Scale([1., 2., 3.])]) does not produce a valid batch shape when event_ndims = [0, 0], since the batch shapes of the two parts are inconsistent. The same bijector does define valid batch shapes of [], [2], and [3] if event_ndims is [1, 1], [0, 1], or [1, 0], respectively.

Since transforming a single event produces a scalar log-det-Jacobian, the batch shape of a bijector with non-constant Jacobian is expected to equal the shape of forward_log_det_jacobian(x, event_ndims=x_event_ndims) or inverse_log_det_jacobian(y, event_ndims=y_event_ndims), for x or y of the specified ndims.

experimental_compute_density_correction

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experimental_compute_density_correction(
    x, tangent_space, backward_compat=False, **kwargs
)

Density correction for this transformation wrt the tangent space, at x.

Subclasses of Bijector may call the most specific applicable method of TangentSpace, based on whether the transformation is dimension-preserving, coordinate-wise, a projection, or something more general. The backward-compatible assumption is that the transformation is dimension-preserving (goes from R^n to R^n).

forward

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forward(
    x, name='forward', **kwargs
)

Returns the forward Bijector evaluation, i.e., X = g(Y).

forward_dtype

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forward_dtype(
    dtype=UNSPECIFIED, name='forward_dtype', **kwargs
)

Returns the dtype returned by forward for the provided input.

forward_event_ndims

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forward_event_ndims(
    event_ndims, **kwargs
)

Returns the number of event dimensions produced by forward.

forward_event_shape

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forward_event_shape(
    input_shape
)

Shape of a single sample from a single batch as a TensorShape.

Same meaning as forward_event_shape_tensor. May be only partially defined.

forward_event_shape_tensor

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forward_event_shape_tensor(
    input_shape, name='forward_event_shape_tensor'
)

Shape of a single sample from a single batch as an int32 1D Tensor.

forward_log_det_jacobian

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forward_log_det_jacobian(
    x, event_ndims=None, name='forward_log_det_jacobian', **kwargs
)

Returns both the forward_log_det_jacobian.

inverse

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inverse(
    y, name='inverse', **kwargs
)

Returns the inverse Bijector evaluation, i.e., X = g^{-1}(Y).

inverse_dtype

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inverse_dtype(
    dtype=UNSPECIFIED, name='inverse_dtype', **kwargs
)

Returns the dtype returned by inverse for the provided input.

inverse_event_ndims

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inverse_event_ndims(
    event_ndims, **kwargs
)

Returns the number of event dimensions produced by inverse.

inverse_event_shape

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inverse_event_shape(
    output_shape
)

Shape of a single sample from a single batch as a TensorShape.

Same meaning as inverse_event_shape_tensor. May be only partially defined.

inverse_event_shape_tensor

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inverse_event_shape_tensor(
    output_shape, name='inverse_event_shape_tensor'
)

Shape of a single sample from a single batch as an int32 1D Tensor.

inverse_log_det_jacobian

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inverse_log_det_jacobian(
    y, event_ndims=None, name='inverse_log_det_jacobian', **kwargs
)

Returns the (log o det o Jacobian o inverse)(y).

Mathematically, returns: log(det(dX/dY))(Y). (Recall that: X=g^{-1}(Y).)

Note that forward_log_det_jacobian is the negative of this function, evaluated at g^{-1}(y).

parameter_properties

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@classmethod
parameter_properties(
    dtype=tf.float32
)

Returns a dict mapping constructor arg names to property annotations.

This dict should include an entry for each of the bijector's Tensor-valued constructor arguments.

with_name_scope

@classmethod
with_name_scope(
    method
)

Decorator to automatically enter the module name scope.

class MyModule(tf.Module):
  @tf.Module.with_name_scope
  def __call__(self, x):
    if not hasattr(self, 'w'):
      self.w = tf.Variable(tf.random.normal([x.shape[1], 3]))
    return tf.matmul(x, self.w)

Using the above module would produce tf.Variables and tf.Tensors whose names included the module name:

mod = MyModule()
mod(tf.ones([1, 2]))
<tf.Tensor: shape=(1, 3), dtype=float32, numpy=..., dtype=float32)>
mod.w
<tf.Variable 'my_module/Variable:0' shape=(2, 3) dtype=float32,
numpy=..., dtype=float32)>

__call__

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__call__(
    value, name=None, **kwargs
)

Applies or composes the Bijector, depending on input type.

This is a convenience function which applies the Bijector instance in three different ways, depending on the input:

1. If the input is a tfd.Distribution instance, return tfd.TransformedDistribution(distribution=input, bijector=self).
2. If the input is a tfb.Bijector instance, return tfb.Chain([self, input]).
3. Otherwise, return self.forward(input)

Examples

sigmoid = tfb.Reciprocal()(
    tfb.Shift(shift=1.)(
      tfb.Exp()(
        tfb.Scale(scale=-1.))))
# ==> `tfb.Chain([
#         tfb.Reciprocal(),
#         tfb.Shift(shift=1.),
#         tfb.Exp(),
#         tfb.Scale(scale=-1.),
#      ])`  # ie, `tfb.Sigmoid()`

log_normal = tfb.Exp()(tfd.Normal(0, 1))
# ==> `tfd.TransformedDistribution(tfd.Normal(0, 1), tfb.Exp())`

tfb.Exp()([-1., 0., 1.])
# ==> tf.exp([-1., 0., 1.])

__eq__

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__eq__(
    other
)

Return self==value.

__getitem__

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__getitem__(
    slices
)

__iter__

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__iter__()