Files in tulpa

Templated Unified Library for Posterior Approximation in Bayesian Hierarchical Models

MD5

NEWS.md

NAMESPACE

DESCRIPTION

LICENSE

cleanup

R/varcorr.R R/RcppExports.R R/marginal_se_spatial.R R/nested_laplace_joint_helpers.R R/restricted_regression.R R/family_loglik.R R/control_check.R R/laplace_gradient.R R/nested_laplace_moments.R R/bayes_r2.R R/tgmrf_vi.R R/nested_laplace_joint_backends.R R/spatial_field.R R/fit_spde.R R/tgmrf_nuts.R R/glmm_logpost.R R/em_mc.R R/multinomial.R R/posterior_predict.R R/nested_laplace_joint_adaptive.R R/fit_timing.R R/em_laplace.R R/tgmrf_imh.R R/tulpa-package.R R/em_correction.R R/eb_marginal.R R/spatial_car.R R/ep.R R/inference_modes.R R/field_effects.R R/cila.R R/priors.R R/fit_laplace.R R/tgmrf.R R/nested_laplace_joint_ccd_local.R R/envvars.R R/temporal_core.R R/kfold.R R/nested_laplace_placement.R R/threads.R R/ordinal.R R/spd_inverse.R R/categorical_accessors.R R/hyperprior_default.R R/settings.R R/joint_placement_pass.R R/outer_threads.R R/nested_laplace_joint_hyperpriors.R R/diagnostics_sim.R R/posterior_draws_hyper.R R/hyper_axis_spec.R R/outer_grid.R R/spatial_svc.R R/simulate.R R/nested_laplace_joint_ccd.R R/mode_find.R R/nested_laplace_joint.R R/temporal_gp.R R/family_zi.R R/nested_laplace_re_cov.R R/psis.R R/family_link.R R/fit_gibbs.R R/integrator.R R/agq.R R/nested_laplace_joint_batch.R R/nested_laplace_auto_grid.R R/fit_st_nested_auto_grid.R R/bridge_sampling.R R/criteria.R R/prune_screen.R R/tulpa.R R/hyper_grid.R R/re_cov_gibbs.R R/hyper_quadrature.R R/ccd_grid.R R/posterior_draws.R R/diagnostics.R R/tgmrf_nuts_joint.R R/plot_map.R R/varying_coef.R R/subspace_debias.R R/pathfinder.R R/latent.R R/fit_gaussian.R R/nested_laplace_joint_pareto_k.R R/fit_st_nested.R R/methods_interop.R R/validate_helpers.R R/spatial_gp.R R/convergence.R R/warm_start.R R/brasil.R R/nested_laplace_refine.R R/outer_pareto_candidates.R R/tgmrf_pilot.R R/mala.R R/spatiotemporal.R R/rational_spde.R R/fit_laplace_beta.R R/nested_laplace_joint_multi.R R/hyper_grid_refine.R R/profile.R R/temporal_field.R R/fit_spde_nested.R R/spatial_rsr_spde.R R/posterior_draws_joint.R R/skew_normal.R R/methods_generic.R R/eb.R R/temporal_rtr_posteriors.R R/smoother.R R/imh_laplace.R R/zzz.R R/nested_laplace.R R/sample_glmm.R R/fit_beta_nuts.R R/re_aghq.R R/nested_laplace_pilot.R R/tgmrf_log_marginal.R R/temporal_tvc.R R/diagnostics_generic.R R/validate.R R/laplace_diagnostics.R R/within_cell_log_quadratic.R R/temporal.R R/family_dispersion.R R/spatial.R R/priorsense.R R/sbc.R R/plot_diagnostics.R R/formula.R R/adjacency.R R/fit_spde_nuts.R R/progress_iter.R R/tgmrf_cpp.R R/temporal_ar2.R

src/msgp_nc_apply.h

src/test_hsgp_warm_start.cpp

src/spde_nc_transform.h

src/test_cholesky_log_det_signal.cpp

src/autodiff_utils.h

src/hmc_latent.h

src/hmc_nuts_chain_setup.h

src/unity_spatial.cpp

src/Makevars.win

src/unity_exports.cpp

src/mem_budget.h

src/Makevars

src/hmc_gp_log_lik.h

src/unity_glmm.cpp

src/msgp_nc_apply.cpp

src/laplace_spec.cpp

src/pg_binomial.cpp

src/re_cov_chol.h

src/test_st_fixture_parse.h

src/laplace_family_zi_phi.h

src/temporal_gp_kernel.h

src/hmc_gradient_dispatch.h

src/test_lkj_chol.cpp

src/unity_laplace.cpp

src/fastmath_data.cpp

src/laplace_profile.cpp

src/array_utils.cpp

src/pg_spatial.h

src/shim_guard.h

src/icar_kernel.h

src/joint_inner_vcov.cpp

src/hmc_sampler.h

src/hmc_sampler_mass_blocks.h

src/hmc_latent_autodiff.h

src/nngp_block_factory.h

src/test_ccallable_registry.cpp

src/tulpa_shims_laplace_spec.h

src/tulpa_priors_svc.h

src/gpu_backend.h

src/laplace_spatial_priors.cpp

src/implicit_diff.cpp

src/laplace_core.cpp

src/nested_laplace_joint_multi.h

src/hmc_mass_drift.h

src/sparse_hessian.h

src/tulpa_shims.cpp

src/hmc_nuts_optimized.cpp

src/hmc_nuts_chain_iter_store.h

src/tulpa_priors_tvc.h

src/simp_integrator.cpp

src/unity_nl.cpp

src/hmc_nuts_chain_iter_hmc.h

src/re_cov_gibbs.cpp

src/laplace_newton.h

src/RcppExports.cpp

src/test_helpers.cpp

src/implicit_diff.h

src/smc_sampler.h

src/hmc_sampler_adapt.h

src/mclmc.cpp

src/spde_nc_apply.cpp

src/hmc_nuts_find_epsilon.cpp

src/test_temporal_gp_fixture.cpp

src/tulpa_priors_spde.h

src/hmc_sampler_decls.h

src/svc_nc_apply.cpp

src/hmc_sampler_funcs.h

src/psis_kernel.cpp

src/gp_predict.cpp

src/spde_logdet.h

src/test_laplace_sample_fixture.cpp

src/pg_binomial.h

src/tulpa_priors_latent.h

src/scatter_indexed_cache.h

src/nested_laplace.cpp

src/spde_nc_transform.cpp

src/builtin_family_ll_ad.h

src/nested_laplace_test_occupancy.cpp

src/test_mass_lowrank.cpp

src/hmc_gp_cg.h

src/glmm_family_elt.h

src/re_cov_grad_export.cpp

src/hyperprior_density_export.cpp

src/spde_matern_map.h

src/hmc_gp_solvers.h

src/coupled_scatter_plan.h

src/tulpa_priors.h

src/nngp_nc_term_apply.h

src/glmm_oracle.h

src/portable_math_export.cpp

src/laplace_newton_joint.h

src/bym2_mixing.h

src/hmc_nuts_leapfrog.cpp

src/latent_factor_block_factory.h

src/joint_pd_step.h

src/laplace_re_priors.h

src/autodiff.h

src/tulpa_beta_sampler.cpp

src/laplace_cholesky_dispatch.h

src/laplace_temporal_priors.h

src/inner_laplace_probe.h

src/unity_core.cpp

src/family_terms_export.cpp

src/field_block_priors.h

src/gpu_backend.cpp

src/vi_sampler.cpp

src/joint_inner_vcov.h

src/laplace_spec_solve.h

src/hmc_mass_st_gmrf.cpp

src/hsgp_basis.cpp

src/nested_laplace_joint_batch.h

src/laplace_multi_re_problem.h

src/hmc_svc.h

src/hmc_mass_lowrank.h

src/nested_laplace_multi.h

src/hmc_chain_checkpoint.h

src/nested_laplace_entries.h

src/car_proper_block.h

src/hmc_multiscale_temporal_grad.h

src/s2z_direct_reference.h

src/checkpoint_io.h

src/hmc_gradient_fallback.cpp

src/sampler_model_data.h

src/tulpa_priors_st.h

src/hmc_nuts_chain_iter_nuts.h

src/hmc_tvc.h

src/hmc_gp_nc.h

src/brasil_export.cpp

src/crt_rng.h

src/gpu_nngp_laplace.h

src/tgmrf_registry.h

src/st_type_iv_precision.h

src/test_cell_coupling_bivariate_gaussian.h

src/pg_binomial_rsr.cpp

src/rwmh.h

src/hmc_rcpp_utils.cpp

src/row_classes.h

src/cell_coupling_probe.cpp

src/pg_rng.h

src/tulpa_shims_stochastic.h

src/hmc_mass_matrix.cpp

src/curvature3_contract.h

src/tulpa_shims_nested_laplace.h

src/tulpa_generic_sampler.cpp

src/pg_binomial_bym2.cpp

src/vi_lowrank.h

src/cell_curvature3.h

src/nl_lq_density.cpp

src/test_fastmath_fixture.cpp

src/hmc_gp_gradients.h

src/lkj_chol_helpers.h

src/laplace_likelihoods.cpp

src/aghq_re.cpp

src/tulpa-win.def

src/latent_block.h

src/spde_nc_apply.h

src/tulpa_spde_sampler.cpp

src/laplace_newton_joint_sparse.h

src/nngp_nc_term_apply.cpp

src/tulpa_init.cpp

src/sobol_direction_numbers.h

src/tgmrf_registry.cpp

src/vi_convergence_probe.cpp

src/nngp_twin_export.cpp

src/unity_pg.cpp

src/spde_qbuilder.h

src/laplace_types.h

src/log_post_generic_impl.cpp

src/nl_field_identity_export.cpp

src/aghq_re_core.h

src/mcar_block_factory.h

src/sampler_log_prob.h

src/hsgp_spectral.h

src/builtin_family_zi.h

src/spde_field_se.cpp

src/gpu_cuda.h

src/spde_block_factory.h

src/re_structure.h

src/hmc_nuts_helpers.cpp

src/subspace_debias.h

src/hmc_nuts_mass_init.cpp

src/mclmc.h

src/nested_laplace_checkpoint.h

src/linalg_fast.h

src/cholmod_view.h

src/tulpa_priors_zioi.h

src/pg_negbin.cpp

src/hmc_svc_autodiff.h

src/tulpa_priors_hsgp.h

src/log_post_impl.h

src/laplace_cholesky.h

src/pg_negbin.h

src/stochastic_logdet.cpp

src/smc_modeldata.h

src/cell_coupling_registry.cpp

src/ess_sampler.h

src/nested_laplace_grid.h

src/hmc_gradients.cpp

src/tulpa_priors_re.h

src/svc_nc_apply.h

src/hmc_sampler_chain_state.h

src/ess_sampler.cpp

src/omp_threads.h

src/hmc_mass_st_gmrf.h

src/hmc_gp_lbfgs.h

src/hmc_hsgp_kernels.h

src/tulpa_glmm_eta_draws.cpp

src/st_null_space.h

src/hmc_gradient_dispatch.cpp

src/sysmem.h

src/inner_cila.h

src/hmc_nuts_curvature.cpp

src/laplace_profile.h

src/cov_kernel_equiv_export.cpp

src/hmc_walnuts.cpp

src/laplace_family_curvature.h

src/hmc_car_proper.h

src/joint_hessian_pattern.h

src/aghq_re_oracles.h

src/pg_binomial_multiscale_gp.cpp

src/hmc_nuts_chain_iter_window.h

src/unity_hmc.cpp

src/vi_types.h

src/sparse_cholesky.h

src/hsgp_block_factory.h

src/spde_laplace.cpp

src/test_cell_coupling_weighted_gaussian.h

src/stochastic_logdet.h

src/test_pg_nngp_conditional.cpp

src/nested_laplace_joint_batch.cpp

src/pc_prior.h

src/tulpa_spde_layout_probe.cpp

src/log_post_generic_impl.h

src/laplace_s2z_probe.cpp

src/pg_shared.h

src/test_smc_cabi.cpp

src/sobol_export.cpp

src/aghq_re_mode.h

src/hmc_sampler_nuts_infra.h

src/interval_gaussian_export.cpp

src/re_cov_gibbs_sweep.h

src/tulpa_test_funnel.cpp

src/pg_spatial.cpp

src/hmc_walnuts.h

src/tulpa_shims_pg.h

src/hmc_temporal.h

src/cell_coupling_separable.h

src/unit_precision_block.h

src/nl_entry_inputs.h

src/mclmc_modeldata.h

src/nested_laplace_joint_multi.cpp

src/cell_coupling_registry.h

src/laplace_core.h

src/inner_laplace_is.h

src/vi_optimizer.h

src/test_cell_coupling_register.cpp

src/unity_samplers.cpp

src/pg_binomial_temporal.cpp

src/pg_binomial_gp.cpp

src/laplace_spec_fit.h

src/inner_laplace_skew.h

src/unity_tests.cpp

src/hmc_sampler.cpp

src/autodiff.cpp

src/brasil.h

src/spde_zero_mass.h

src/cov_kernel_export.cpp

src/laplace_spatial_priors.h

src/cholmod_stub_resolve.cpp

src/laplace_core_gp.cpp

src/pg_binomial_gp_rsr.cpp

src/smc_sampler.cpp

src/hmc_hsgp.h

src/laplace_temporal_priors.cpp

src/multinomial_logit_export.cpp

src/hmc_nuts_parallel.cpp

src/sparse_cholesky.cpp

src/tgmrf_block_factory.h

src/sysmem.cpp

src/gp_nc_apply.cpp

src/sghmc_sampler.h

src/unity_nl_joint.cpp

src/inv_block_extract.h

src/test_st_iv_fixture.cpp

src/pg_rng.cpp

src/hmc_gp.h

src/tulpa_priors_temporal.h

src/laplace_family_link.h

src/cornish_fisher.h

src/crt_rng.cpp

src/scatter_dense_basis.h

src/tulpa_sample_glmm.cpp

src/hmc_sampler_config.h

src/test_cell_coupling_separable_bernoulli.h

src/sobol.h

src/test_cell_coupling_occupancy_mixture.h

src/tgmrf_nuts.cpp

src/laplace_core_spatial.cpp

src/laplace_newton_loop.h

src/tulpa_priors_gp.h

src/areal_input_check.h

src/fastmath.h

src/temporal_grad_equiv_export.cpp

src/laplace_likelihoods.h

src/tulpa_priors_msgp.h

src/hmc_chain_stack.h

src/hsgp_mo_block_factory.h

src/vi_fullrank.h

src/nngp_cond.h

src/tulpa_glmm_layout_probe.cpp

src/truncated_gaussian_export.cpp

src/nested_laplace_multi.cpp

src/array_utils.h

src/cornish_fisher.cpp

src/multinomial_logit.h

src/test_nan_gradient_nuts.cpp

src/block_projector.h

src/nl_cell_cache.h

src/spde_fractional_marginal.cpp

src/tulpa_shims_vi_ess.h

src/hmc_gp_autodiff.h

src/laplace_family_zi_curvature.h

src/hmc_nuts_dual_avg.cpp

src/hmc_nuts_chain.cpp

src/gp_nc_apply.h

src/laplace_builtin_family_spec.h

src/hessian_pattern_guard.h

src/tulpa_priors_mstemporal.h

src/linalg_tri_layout_export.cpp

src/pc_prior_equiv_export.cpp

src/hmc_temporal_multiscale.h

src/nested_laplace_joint_core.h

src/tulpa_shims_sparse.h

src/hmc_tvc_grad.h

src/tulpa_priors_icar.h

src/hmc_param_layout.cpp

src/laplace_spec_curvature3.h

src/vi_meanfield.h

src/laplace_s2z.h

src/test_st_hsgp_prior.cpp

src/simp/scheme.h

src/simp/simp.h

src/simp/integrate.h

src/simp/adapt.h

src/simp/mts.h

src/simp/implicit.h

src/simp/harmonic.h

inst/COPYRIGHTS

inst/CITATION

inst/WORDLIST

inst/include/tulpa/laplace_api.h

inst/include/tulpa/tvc_data.h

inst/include/tulpa/lkj_chol.h

inst/include/tulpa/param_layout.h

inst/include/tulpa/pg_api.h

inst/include/tulpa/aghq_oracle.h

inst/include/tulpa/likelihood.h

inst/include/tulpa/walnuts.h

inst/include/tulpa/cell_coupling.h

inst/include/tulpa/ess_api.h

inst/include/tulpa/nested_progress.h

inst/include/tulpa/priors_capped.h

inst/include/tulpa/laplace_spec_api.h

inst/include/tulpa/sghmc_api.h

inst/include/tulpa/nuts_api.h

inst/include/tulpa/spde_api.h

inst/include/tulpa/spde_model_data.h

inst/include/tulpa/gp_data.h

inst/include/tulpa/smc_api.h

inst/include/tulpa/model_data.h

inst/include/tulpa/family_density.h

inst/include/tulpa/graph_components.h

inst/include/tulpa/nested_laplace_api.h

inst/include/tulpa/nested_likelihood.h

inst/include/tulpa/vi_api.h

inst/include/tulpa/cov_kernel.h

inst/include/tulpa/autodiff_arena.h

inst/include/tulpa/svc_data.h

inst/include/tulpa/st_data.h

inst/include/tulpa/gauss_hermite.h

inst/include/tulpa/re_term_prior.h

inst/include/tulpa/sum_to_zero.h

inst/include/tulpa/temporal_data.h

inst/include/tulpa/portable_math.h

inst/include/tulpa/mclmc_api.h

inst/include/tulpa/soft_sum_to_zero.h

inst/include/tulpa/tgmrf.h

inst/include/tulpa/types.h

inst/include/tulpa/autodiff_fwd.h

inst/include/tulpa/walnuts_config.h

inst/include/tulpa/hsgp_data.h

inst/include/tulpa/sparse_solver_api.h

inst/include/tulpa/ad_scalar_math.h

inst/doc/quickstart.html

inst/doc/quickstart.R

inst/doc/spatial-models.html

inst/doc/inference-modes.Rmd inst/doc/spatial-models.Rmd

inst/doc/inference-modes.html

inst/doc/inference-modes.R inst/doc/quickstart.Rmd inst/doc/spatial-models.R inst/examples/tgmrf_periodic_ar1.R

inst/examples/tgmrf_periodic_ar1.cpp

inst/examples/tgmrf_periodic_ar1_cpp.R

build/vignette.rds

build/partial.rdb

tests/testthat.R tests/testthat/test-sampler-spec-dims.R tests/testthat/test-re-aghq-cross-hessian.R tests/testthat/test-re-cov-gibbs.R tests/testthat/test-cell-curvature3.R tests/testthat/test-settings.R tests/testthat/test-subspace-debias.R tests/testthat/test-ess-mixing.R tests/testthat/test-spatial-empty-cells.R tests/testthat/test-nngp-coords-arity.R tests/testthat/test-ccd-grid.R tests/testthat/test-nested-laplace-cpp.R tests/testthat/test-temporal-gp-parameterization.R tests/testthat/test-hyper-copy-slab.R tests/testthat/test-outer-thread-clamp-report.R tests/testthat/test-zi-random-effects.R tests/testthat/test-pathfinder.R tests/testthat/test-nested-laplace-cyclic-rw2-multi.R tests/testthat/test-re-aghq-multiarm.R tests/testthat/test-hyper-axis-domain.R tests/testthat/test-hessian-pattern-guard.R tests/testthat/helper-reference.R tests/testthat/test-joint-placement-block-scale.R tests/testthat/test-mala.R tests/testthat/test-inner-debias-note.R tests/testthat/test-checkpoint-universal.R tests/testthat/test-multiscale-temporal-index-guards.R tests/testthat/test-st-ar1-gp-density.R tests/testthat/test-laplace-weights.R tests/testthat/test-stochastic-logdet.R tests/testthat/test-ccd-modefind-budget.R tests/testthat/test-eb.R tests/testthat/test-re-cov-k-batch.R tests/testthat/test-spatial-field.R tests/testthat/test-nested-laplace-joint-batch-response.R tests/testthat/test-nested-laplace-joint-phase1-alpha-smoke.R tests/testthat/test-outer-grid-dump.R tests/testthat/test-audit-228-239.R tests/testthat/test-adjacency.R tests/testthat/test-nested-laplace-joint-grid-adaptive.R tests/testthat/test-pit-cpp.R tests/testthat/test-sparse-cholesky.R tests/testthat/test-nested-laplace-joint-phi-prior.R tests/testthat/test-ep.R tests/testthat/test-consistency-bisection.R tests/testthat/test-temporal-cyclic-rank.R tests/testthat/test-laplace-spec-block-icar.R tests/testthat/test-hsgp-warm-start-guard.R tests/testthat/test-pg-rng.R tests/testthat/test-nl-wtd-quantile-extend.R tests/testthat/test-temporal-gp-frontdoor.R tests/testthat/test-vi-gradient.R tests/testthat/test-frontdoor-constructors.R tests/testthat/test-finite-input-guard-arms.R tests/testthat/test-nested-laplace-joint-adaptive-grid.R tests/testthat/test-nl-field-identity.R tests/testthat/test-entry-conventions.R tests/testthat/test-pc-prior-scales.R tests/testthat/test-tgmrf-vi.R tests/testthat/test-within-cell-log-quadratic.R tests/testthat/test-loglik-sampler-logprob.R tests/testthat/test-temporal-grad-equiv.R tests/testthat/test-re-cov-recovery.R tests/testthat/test-hsgp-nuts-frontdoor.R tests/testthat/test-frontdoor-response-groups.R tests/testthat/test-gibbs-chain.R tests/testthat/test-nested-laplace.R tests/testthat/test-fit-timing.R tests/testthat/test-refinement-screen.R tests/testthat/test-tgmrf-cpp.R tests/testthat/test-reference-mle-zi.R tests/testthat/test-spde-nc-transform.R tests/testthat/test-cov-kernel.R 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tests/testthat/test-screen-depth.R

tests/testthat/_ref/leapfrog_ref.rds

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tulpa documentation built on Oct. 19, 2026, 5:09 p.m.