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LARS

Least angle regression and the lasso covariance test

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Least angle regression

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Introduction

Least angle regression is a variable selection/shrinkage procedure for high-dimensional data. It is also an algorithm for efficiently finding all knots in the solution path for the aforementioned this regression procedure, as well as for lasso (L1-regularized) linear regression. Fitting the entire solution path is useful for selecting the optimal value of the shrinkage parameter λ for a given dataset, and for the lasso covariance test, which provides the significance of each variable addition along the lasso path.

Usage

LARS solution paths are provided by the lars function:

lars(X, y; method=:lasso, intercept=true, standardize=true, lambda2=0.0,
     use_gram=true, maxiter=typemax(Int), lambda_min=0.0, verbose=false)

X is the design matrix and y is the dependent variable. The optional parameters are:

method - either :lasso or :lars.

intercept - whether to fit an intercept in the model. The intercept is always unpenalized.

standardize - whether to standardize the predictor matrix. In contrast to linear regression, this affects the algorithm's results. The returned coefficients are always unstandardized.

lambda2 - the elastic net ridge penalty. Zero for pure lasso. Note that the returned coefficients are the "naive" elastic net coefficients. They can be adjusted as recommended by Zhou and Hastie (2005) by scaling by 1 + lambda2.

use_gram - whether to use a precomputed Gram matrix in computation.

maxiter - maximum number of iterations of the algorithm. If this is exceeded, an incomplete path is returned. lambda_min - value of λ at which the algorithm should stop.

verbose - if true, prints information at each step.

The covtest function computes the lasso covariance test based on a LARS path:

covtest(path, X, y; errorvar)

path is the output of the LARS function above, and X and y are the independent and dependent variables used in fitting the path. If specified, errorvar is the variance of the error. If not specified, the error variance is computed based on the least squares fit of the full model.

Notes

The output of covtest has minor discrepancies with that of the covTest package. This is because the covTest package does not take into account the intercept in the least squares model fit when computing the error variance, which I believe is incorrect. I have emailed the authors but have yet to receive a response.

Benchmarks

scikit-learn Performance Comparison

LARS.jl is substantially faster than scikit-learn for cases where the number of samples exceeds the number of features, particularly when using a Gram matrix. For cases where the number of features greatly exceeds the number of samples, scikit-learn is still occasionally faster. I am still tracking down the cause.

See also

GLMNet fits the lasso solution path using coordinate descent and supports fitting L1-regularized generalized linear models.

Credits

This package is written and maintained by Simon Kornblith simon@simonster.com.

The lars function is derived from code from scikit-learn written by:

First Commit

03/21/2014

Last Touched

3 months ago

Commits

28 commits

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