`sklearn.covariance`.GraphicalLassoCV¶

class sklearn.covariance.GraphicalLassoCV(*, alphas=4, n_refinements=4, cv=None, tol=0.0001, enet_tol=0.0001, max_iter=100, mode='cd', n_jobs=None, verbose=False, assume_centered=False)[source]¶

Sparse inverse covariance w/ cross-validated choice of the l1 penalty.

See glossary entry for cross-validation estimator.

See also

graphical_lasso: L1-penalized covariance estimator.
GraphicalLasso: Sparse inverse covariance with cross-validated choice of the l1 penalty.

Notes

The search for the optimal penalization parameter (alpha) is done on an iteratively refined grid: first the cross-validated scores on a grid are computed, then a new refined grid is centered around the maximum, and so on.

One of the challenges which is faced here is that the solvers can fail to converge to a well-conditioned estimate. The corresponding values of alpha then come out as missing values, but the optimum may be close to these missing values.

Examples

>>> import numpy as np
>>> from sklearn.covariance import GraphicalLassoCV
>>> true_cov = np.array([[0.8, 0.0, 0.2, 0.0],
...                      [0.0, 0.4, 0.0, 0.0],
...                      [0.2, 0.0, 0.3, 0.1],
...                      [0.0, 0.0, 0.1, 0.7]])
>>> np.random.seed(0)
>>> X = np.random.multivariate_normal(mean=[0, 0, 0, 0],
...                                   cov=true_cov,
...                                   size=200)
>>> cov = GraphicalLassoCV().fit(X)
>>> np.around(cov.covariance_, decimals=3)
array([[0.816, 0.051, 0.22 , 0.017],
       [0.051, 0.364, 0.018, 0.036],
       [0.22 , 0.018, 0.322, 0.094],
       [0.017, 0.036, 0.094, 0.69 ]])
>>> np.around(cov.location_, decimals=3)
array([0.073, 0.04 , 0.038, 0.143])

Methods

`error_norm`(comp_cov[, norm, scaling, squared])	Compute the Mean Squared Error between two covariance estimators.
`fit`(X[, y])	Fit the GraphicalLasso covariance model to X.
`get_params`([deep])	Get parameters for this estimator.
`get_precision`()	Getter for the precision matrix.
`mahalanobis`(X)	Compute the squared Mahalanobis distances of given observations.
`score`(X_test[, y])	Compute the log-likelihood of `X_test` under the estimated Gaussian model.
`set_params`(**params)	Set the parameters of this estimator.

property cv_alphas_¶: DEPRECATED: The cv_alphas_ attribute is deprecated in version 0.24 in favor of cv_results_['alpha'] and will be removed in version 1.1 (renaming of 0.26).

error_norm(comp_cov, norm='frobenius', scaling=True, squared=True)[source]¶

Compute the Mean Squared Error between two covariance estimators.

Parameters

comp_covarray-like of shape (n_features, n_features): The covariance to compare with.
norm{“frobenius”, “spectral”}, default=”frobenius”: The type of norm used to compute the error. Available error types: - ‘frobenius’ (default): sqrt(tr(A^t.A)) - ‘spectral’: sqrt(max(eigenvalues(A^t.A)) where A is the error (comp_cov - self.covariance_).
scalingbool, default=True: If True (default), the squared error norm is divided by n_features. If False, the squared error norm is not rescaled.
squaredbool, default=True: Whether to compute the squared error norm or the error norm. If True (default), the squared error norm is returned. If False, the error norm is returned.

Returns

resultfloat: The Mean Squared Error (in the sense of the Frobenius norm) between self and comp_cov covariance estimators.

fit(X, y=None)[source]¶

Fit the GraphicalLasso covariance model to X.

Parameters

Xarray-like of shape (n_samples, n_features): Data from which to compute the covariance estimate.
yIgnored: Not used, present for API consistency by convention.

Returns

selfobject: Returns the instance itself.

get_params(deep=True)[source]¶

Get parameters for this estimator.

Parameters

deepbool, default=True: If True, will return the parameters for this estimator and contained subobjects that are estimators.

Returns

paramsdict: Parameter names mapped to their values.

get_precision()[source]¶

Getter for the precision matrix.

Returns

precision_array-like of shape (n_features, n_features): The precision matrix associated to the current covariance object.

property grid_scores_¶: DEPRECATED: The grid_scores_ attribute is deprecated in version 0.24 in favor of cv_results_ and will be removed in version 1.1 (renaming of 0.26).

mahalanobis(X)[source]¶

Compute the squared Mahalanobis distances of given observations.

Parameters

Xarray-like of shape (n_samples, n_features): The observations, the Mahalanobis distances of the which we compute. Observations are assumed to be drawn from the same distribution than the data used in fit.

Returns

distndarray of shape (n_samples,): Squared Mahalanobis distances of the observations.

score(X_test, y=None)[source]¶

Compute the log-likelihood of X_test under the estimated Gaussian model.

The Gaussian model is defined by its mean and covariance matrix which are represented respectively by self.location_ and self.covariance_.

Parameters

X_testarray-like of shape (n_samples, n_features): Test data of which we compute the likelihood, where n_samples is the number of samples and n_features is the number of features. X_test is assumed to be drawn from the same distribution than the data used in fit (including centering).
yIgnored: Not used, present for API consistency by convention.

Returns

resfloat: The log-likelihood of X_test with self.location_ and self.covariance_ as estimators of the Gaussian model mean and covariance matrix respectively.

set_params(**params)[source]¶

Set the parameters of this estimator.

The method works on simple estimators as well as on nested objects (such as Pipeline). The latter have parameters of the form <component>__<parameter> so that it’s possible to update each component of a nested object.

Parameters

**paramsdict: Estimator parameters.

Returns

selfestimator instance: Estimator instance.

Examples using `sklearn.covariance.GraphicalLassoCV`¶

sklearn.covariance.GraphicalLassoCV¶

Examples using sklearn.covariance.GraphicalLassoCV¶

`sklearn.covariance`.GraphicalLassoCV¶

Examples using `sklearn.covariance.GraphicalLassoCV`¶