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R/library/PhylogeneticEM/DESCRIPTION
R/library/PhylogeneticEM/INDEX
R/library/PhylogeneticEM/LICENSE
R/library/PhylogeneticEM/MD5
R/library/PhylogeneticEM/Meta/Rd.rds
R/library/PhylogeneticEM/Meta/data.rds
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R/library/PhylogeneticEM/Meta/hsearch.rds
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R/library/PhylogeneticEM/NAMESPACE
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R/library/PhylogeneticEM/R/PhylogeneticEM
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R/library/PhylogeneticEM/help/AnIndex
R/library/PhylogeneticEM/help/PhylogeneticEM.rdb
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R/library/PhylogeneticEM/help/aliases.rds
R/library/PhylogeneticEM/help/paths.rds
R/library/PhylogeneticEM/html/00Index.html
R/library/PhylogeneticEM/html/PhyloEM.html
R/library/PhylogeneticEM/html/R.css
R/library/PhylogeneticEM/html/add_complementary.html
R/library/PhylogeneticEM/html/allocate_regimes_from_shifts.html
R/library/PhylogeneticEM/html/allocate_shifts_from_regimes.html
R/library/PhylogeneticEM/html/allocate_subset_node.simulate.html
R/library/PhylogeneticEM/html/check.selection.strength.html
R/library/PhylogeneticEM/html/check_data.html
R/library/PhylogeneticEM/html/check_dimensions.html
R/library/PhylogeneticEM/html/check_parsimony.html
R/library/PhylogeneticEM/html/check_parsimony_clusters.html
R/library/PhylogeneticEM/html/clusters_from_shifts.html
R/library/PhylogeneticEM/html/compute_E.simple.html
R/library/PhylogeneticEM/html/compute_actualization_matrix_ultrametric.html
R/library/PhylogeneticEM/html/compute_betas_from_shifts.html
R/library/PhylogeneticEM/html/compute_diff_exp.BM.html
R/library/PhylogeneticEM/html/compute_dist_phy.html
R/library/PhylogeneticEM/html/compute_expectations.BM.html
R/library/PhylogeneticEM/html/compute_expectations.scOU.html
R/library/PhylogeneticEM/html/compute_fixed_moments.html
R/library/PhylogeneticEM/html/compute_gauss_lasso.html
R/library/PhylogeneticEM/html/compute_log_likelihood.simple.html
R/library/PhylogeneticEM/html/compute_mahalanobis_distance.simple.html
R/library/PhylogeneticEM/html/compute_mean_variance.simple.html
R/library/PhylogeneticEM/html/compute_residuals.simple.html
R/library/PhylogeneticEM/html/compute_shifts_from_betas.html
R/library/PhylogeneticEM/html/compute_state_filter.html
R/library/PhylogeneticEM/html/compute_stationary_variance.html
R/library/PhylogeneticEM/html/compute_sum_var_diff.html
R/library/PhylogeneticEM/html/compute_times_ca.html
R/library/PhylogeneticEM/html/compute_tree_correlations_matrix.BM.html
R/library/PhylogeneticEM/html/compute_tree_correlations_matrix.scOU.html
R/library/PhylogeneticEM/html/compute_var_M.BM.html
R/library/PhylogeneticEM/html/compute_var_diff.BM.html
R/library/PhylogeneticEM/html/compute_variance_covariance.BM.html
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R/library/PhylogeneticEM/html/correspondenceEdges.html
R/library/PhylogeneticEM/html/enlight.html
R/library/PhylogeneticEM/html/enumerate_parsimony.html
R/library/PhylogeneticEM/html/enumerate_tips_under_edges.html
R/library/PhylogeneticEM/html/equivalent_shifts.html
R/library/PhylogeneticEM/html/equivalent_shifts_edges.html
R/library/PhylogeneticEM/html/equivalent_shifts_values.html
R/library/PhylogeneticEM/html/estimate.alpha.html
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R/library/PhylogeneticEM/html/extract.equivalent_shifts.html
R/library/PhylogeneticEM/html/extract.html
R/library/PhylogeneticEM/html/extract.parsimonyCost.html
R/library/PhylogeneticEM/html/extract.parsimonyNumber.html
R/library/PhylogeneticEM/html/extract.partitionsNumber.html
R/library/PhylogeneticEM/html/extract.simul_process.html
R/library/PhylogeneticEM/html/extract.variance_covariance.html
R/library/PhylogeneticEM/html/find_grid_alpha.html
R/library/PhylogeneticEM/html/find_independent_regression_vectors.glmnet_multivariate.html
R/library/PhylogeneticEM/html/find_shift_values.html
R/library/PhylogeneticEM/html/format_output.html
R/library/PhylogeneticEM/html/get_variance_node.html
R/library/PhylogeneticEM/html/go_back_to_original_process.html
R/library/PhylogeneticEM/html/impute.data.Rphylopars.html
R/library/PhylogeneticEM/html/imputed_traits.html
R/library/PhylogeneticEM/html/incidence.matrix.full.html
R/library/PhylogeneticEM/html/incidence.matrix.html
R/library/PhylogeneticEM/html/incidence_matrix_actualization_factors.html
R/library/PhylogeneticEM/html/init.EM.lasso.html
R/library/PhylogeneticEM/html/init.allocate_regimes_from_shifts.html
R/library/PhylogeneticEM/html/init.alpha.gamma.estimation.html
R/library/PhylogeneticEM/html/init.compute_betas_from_shifts.html
R/library/PhylogeneticEM/html/init.enumerate_parsimony.html
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R/library/PhylogeneticEM/html/init.incidence.matrix.html
R/library/PhylogeneticEM/html/init.parsimonyCost.html
R/library/PhylogeneticEM/html/init.parsimonyNumber.html
R/library/PhylogeneticEM/html/init.simulate.BM.html
R/library/PhylogeneticEM/html/init.simulate.OU.html
R/library/PhylogeneticEM/html/init.simulate.StateAndExp.html
R/library/PhylogeneticEM/html/is.in.ranges.html
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R/library/PhylogeneticEM/html/merge_complementary_vectors.html
R/library/PhylogeneticEM/html/merge_params_independent.html
R/library/PhylogeneticEM/html/model_selection.html
R/library/PhylogeneticEM/html/monkeys.html
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R/library/PhylogeneticEM/html/partitionsNumber.html
R/library/PhylogeneticEM/html/penalty_BaraudGiraudHuet_likelihood.html
R/library/PhylogeneticEM/html/penalty_BirgeMassart_shape1.html
R/library/PhylogeneticEM/html/penalty_BirgeMassart_shape2.html
R/library/PhylogeneticEM/html/penalty_pBIC.html
R/library/PhylogeneticEM/html/plot.PhyloEM.html
R/library/PhylogeneticEM/html/plot.enumerate_parsimony.html
R/library/PhylogeneticEM/html/plot.equivalent_shifts.html
R/library/PhylogeneticEM/html/plot.params_process.html
R/library/PhylogeneticEM/html/prod.index.html
R/library/PhylogeneticEM/html/qr.solve_exact.html
R/library/PhylogeneticEM/html/recursionDown.html
R/library/PhylogeneticEM/html/residuals.PhyloEM.html
R/library/PhylogeneticEM/html/sample_edges_intervals.html
R/library/PhylogeneticEM/html/sample_shifts_edges.html
R/library/PhylogeneticEM/html/scale_params.html
R/library/PhylogeneticEM/html/segmentation.BM.html
R/library/PhylogeneticEM/html/segmentation.OU.specialCase.lasso.html
R/library/PhylogeneticEM/html/segmentation.OU.specialCase.same_shifts.html
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R/library/PhylogeneticEM/html/shifts.list_to_vector.html
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R/library/PhylogeneticEM/html/simul_process.html
R/library/PhylogeneticEM/html/simulate_internal.html
R/library/PhylogeneticEM/html/split_params_independent.html
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R/library/PhylogeneticEM/html/transform_branch_length.html
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R/library/PhylogeneticEM/html/update.partitionsNumber.gen.html
R/library/PhylogeneticEM/html/wrapper_E_step.html
R/library/PhylogeneticEM/libs/x64/PhylogeneticEM.dll
