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loo (version 2.3.1)

Efficient Leave-One-Out Cross-Validation and WAIC for Bayesian Models

Description

Efficient approximate leave-one-out cross-validation (LOO) for Bayesian models fit using Markov chain Monte Carlo, as described in Vehtari, Gelman, and Gabry (2017) . The approximation uses Pareto smoothed importance sampling (PSIS), a new procedure for regularizing importance weights. As a byproduct of the calculations, we also obtain approximate standard errors for estimated predictive errors and for the comparison of predictive errors between models. The package also provides methods for using stacking and other model weighting techniques to average Bayesian predictive distributions.

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Version

Install

install.packages('loo')

Monthly Downloads

46,593

Version

2.3.1

License

GPL (>= 3)

Maintainer

Last Published

July 14th, 2020

Functions in loo (2.3.1)

compare

Model comparison (deprecated, old version)
find_model_names

Find the model names associated with "loo" objects
gpdfit

Estimate parameters of the Generalized Pareto distribution
loo_subsample

Efficient approximate leave-one-out cross-validation (LOO) using subsampling
loo_moment_match_split

Split moment matching for efficient approximate leave-one-out cross-validation (LOO)
loo-package

Efficient LOO-CV and WAIC for Bayesian models
loo

Efficient approximate leave-one-out cross-validation (LOO)
update.psis_loo_ss

Update psis_loo_ss objects
waic

Widely applicable information criterion (WAIC)
psis

Pareto smoothed importance sampling (PSIS)
psis_approximate_posterior

Diagnostics for Laplace and ADVI approximations and Laplace-loo and ADVI-loo
kfold-generic

Generic function for K-fold cross-validation for developers
.compute_point_estimate

Compute a point estimate from a draws object
loo-datasets

Datasets for loo examples and vignettes
.thin_draws

Thin a draws object
example_loglik_array

Objects to use in examples and tests
kfold-helpers

Helper functions for K-fold cross-validation
loo_model_weights

Model averaging/weighting via stacking or pseudo-BMA weighting
loo_moment_match

Moment matching for efficient approximate leave-one-out cross-validation (LOO)
loo-glossary

LOO package glossary
extract_log_lik

Extract pointwise log-likelihood from a Stan model
print.loo

Print methods
importance_sampling.default

Importance sampling (default)
print_dims

Print dimensions of log-likelihood or log-weights matrix
importance_sampling.matrix

Importance sampling of matrices
nobs.psis_loo_ss

The number of observations in a psis_loo_ss object.
relative_eff

Convenience function for computing relative efficiencies
psislw

Pareto smoothed importance sampling (deprecated, old version)
nlist

Named lists
parallel_psis_list

Parallel psis list computations
obs_idx

Get observation indices used in subsampling
pareto-k-diagnostic

Diagnostics for Pareto smoothed importance sampling (PSIS)
old-extractors

Extractor methods
ap_psis

Pareto smoothed importance sampling (PSIS) using approximate posteriors
importance_sampling

A parent class for different importance sampling methods.
E_loo

Compute weighted expectations
loo_approximate_posterior

Efficient approximate leave-one-out cross-validation (LOO) for posterior approximations
loo_compare

Model comparison
tis

Truncated importance sampling (TIS)
sis

Standard importance sampling (SIS)
weights.importance_sampling

Extract importance sampling weights
importance_sampling.array

Importance sampling of array
.ndraws

The number of posterior draws in a draws object.