├── #ChangeLog.txt# ├── .gitignore ├── BNT ├── @assocarray │ ├── CVS │ │ ├── Entries │ │ ├── Repository │ │ └── Root │ ├── assocarray.m │ └── subsref.m ├── CPDs │ ├── @boolean_CPD │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ └── boolean_CPD.m │ ├── @deterministic_CPD │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ └── deterministic_CPD.m │ ├── @discrete_CPD │ │ ├── CPD_to_lambda_msg.m │ │ ├── CPD_to_pi.m │ │ ├── CPD_to_scgpot.m │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── convert_to_pot.m │ │ │ ├── convert_to_table.m │ │ │ ├── prob_CPD.m │ │ │ └── prob_node.m │ │ ├── README │ │ ├── convert_CPD_to_table_hidden_ps.m │ │ ├── convert_obs_CPD_to_table.m │ │ ├── convert_to_pot.m │ │ ├── convert_to_sparse_table.c │ │ ├── convert_to_table.m │ │ ├── discrete_CPD.m │ │ ├── dom_sizes.m │ │ ├── log_prob_node.m │ │ ├── private │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ └── prod_CPT_and_pi_msgs.m │ │ ├── prob_node.m │ │ └── sample_node.m │ ├── @gaussian_CPD │ │ ├── CPD_to_lambda_msg.m │ │ ├── CPD_to_pi.m │ │ ├── CPD_to_scgpot.m │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CPD_to_lambda_msg.m │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── gaussian_CPD.m │ │ │ ├── log_prob_node.m │ │ │ ├── maximize_params.m │ │ │ ├── update_ess.m │ │ │ └── update_tied_ess.m │ │ ├── adjustable_CPD.m │ │ ├── convert_CPD_to_table_hidden_ps.m │ │ ├── convert_to_pot.m │ │ ├── convert_to_table.m │ │ ├── display.m │ │ ├── gaussian_CPD.m │ │ ├── gaussian_CPD_params_given_dps.m │ │ ├── get_field.m │ │ ├── learn_params.m │ │ ├── log_prob_node.m │ │ ├── maximize_params.m │ │ ├── maximize_params_debug.m │ │ ├── private │ │ │ ├── CPD_to_linear_gaussian.m │ │ │ └── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ ├── reset_ess.m │ │ ├── sample_node.m │ │ ├── set_fields.m │ │ └── update_ess.m │ ├── @generic_CPD │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── BIC_score_CPD.m │ │ │ ├── CPD_to_dpots.m │ │ │ └── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ ├── README │ │ ├── adjustable_CPD.m │ │ ├── display.m │ │ ├── generic_CPD.m │ │ ├── learn_params.m │ │ ├── log_prior.m │ │ └── set_clamped.m │ ├── @gmux_CPD │ │ ├── CPD_to_lambda_msg.m │ │ ├── CPD_to_pi.m │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ └── gmux_CPD.m │ │ ├── convert_to_pot.m │ │ ├── display.m │ │ ├── gmux_CPD.m │ │ └── sample_node.m │ ├── @hhmm2Q_CPD │ │ ├── CPD_to_CPT.m │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── hhmm2Q_CPD.m │ │ ├── maximize_params.m │ │ ├── reset_ess.m │ │ └── update_ess.m │ ├── @hhmmF_CPD │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── hhmmF_CPD.m │ │ │ ├── log_prior.m │ │ │ ├── maximize_params.m │ │ │ ├── reset_ess.m │ │ │ ├── update_CPT.m │ │ │ └── update_ess.m │ │ ├── hhmmF_CPD.m │ │ ├── log_prior.m │ │ ├── maximize_params.m │ │ ├── reset_ess.m │ │ ├── update_CPT.m │ │ └── update_ess.m │ ├── @hhmmQ_CPD │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── hhmmQ_CPD.m │ │ │ ├── log_prior.m │ │ │ ├── maximize_params.m │ │ │ ├── reset_ess.m │ │ │ ├── update_CPT.m │ │ │ ├── update_ess.m │ │ │ ├── update_ess2.m │ │ │ ├── update_ess3.m │ │ │ └── update_ess4.m │ │ ├── hhmmQ_CPD.m │ │ ├── log_prior.m │ │ ├── maximize_params.m │ │ ├── reset_ess.m │ │ ├── update_CPT.m │ │ └── update_ess.m │ ├── @mlp_CPD │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── convert_to_table.m │ │ ├── maximize_params.m │ │ ├── mlp_CPD.m │ │ ├── reset_ess.m │ │ └── update_ess.m │ ├── @noisyor_CPD │ │ ├── CPD_to_CPT.m │ │ ├── CPD_to_CPT.m~ │ │ ├── CPD_to_lambda_msg.m │ │ ├── CPD_to_pi.m │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── noisyor_CPD.m │ │ └── private │ │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ │ └── sum_prod_CPD_and_pi_msgs.m │ ├── @root_CPD │ │ ├── CPD_to_pi.m │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CPD_to_CPT.m │ │ │ └── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ ├── convert_to_pot.m │ │ ├── log_marg_prob_node.m │ │ ├── log_prob_node.m │ │ ├── root_CPD.m │ │ └── sample_node.m │ ├── @softmax_CPD │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── convert_to_pot.m │ │ ├── convert_to_table.m │ │ ├── display.m │ │ ├── get_field.m │ │ ├── maximize_params.m │ │ ├── private │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ └── extract_params.m │ │ ├── reset_ess.m │ │ ├── sample_node.m │ │ ├── set_fields.m │ │ ├── softmax_CPD.m │ │ └── update_ess.m │ ├── @tabular_CPD │ │ ├── CPD_to_CPT.m │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── BIC_score_CPD.m │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── bayesian_score_CPD.m │ │ │ ├── log_marg_prob_node_case.m │ │ │ ├── mult_CPD_and_pi_msgs.m │ │ │ ├── prob_CPT.m │ │ │ ├── prob_node.m │ │ │ ├── sample_node.m │ │ │ ├── sample_node_single_case.m │ │ │ ├── tabular_CPD.m │ │ │ └── update_params.m │ │ ├── bayes_update_params.m │ │ ├── display.m │ │ ├── get_field.m │ │ ├── learn_params.m │ │ ├── log_marg_prob_node.m │ │ ├── log_nextcase_prob_node.m │ │ ├── log_prior.m │ │ ├── maximize_params.m │ │ ├── reset_ess.m │ │ ├── set_fields.m │ │ ├── tabular_CPD.m │ │ ├── update_ess.m │ │ └── update_ess_simple.m │ ├── @tabular_decision_node │ │ ├── CPD_to_CPT.m │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ └── tabular_decision_node.m │ │ ├── display.m │ │ ├── get_field.m │ │ ├── set_fields.m │ │ └── tabular_decision_node.m │ ├── @tabular_kernel │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ └── tabular_kernel.m │ │ ├── convert_to_pot.m │ │ ├── convert_to_table.m │ │ ├── get_field.m │ │ ├── set_fields.m │ │ └── tabular_kernel.m │ ├── @tabular_utility_node │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── convert_to_pot.m │ │ ├── display.m │ │ └── tabular_utility_node.m │ ├── @tree_CPD │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── display.m │ │ ├── evaluate_tree_performance.m │ │ ├── get_field.m │ │ ├── learn_params.m │ │ ├── readme.txt │ │ ├── set_fields.m │ │ └── tree_CPD.m │ ├── @vonMises_CPD │ │ ├── convert_to_pot.m │ │ ├── convert_to_table.m │ │ ├── learn_params.m │ │ ├── maximize_params.m │ │ ├── reset_ess.m │ │ ├── update_ess.m │ │ ├── vonMises_CPD.m │ │ └── vonMises_CPD_params_given_dps.m │ ├── CVS │ │ ├── Entries │ │ ├── Entries.Log │ │ ├── Repository │ │ └── Root │ ├── Old │ │ ├── @linear_gaussian_CPD │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── linear_gaussian_CPD.m │ │ │ ├── log_marg_prob_node.m │ │ │ └── update_params_complete.m │ │ ├── @root_gaussian_CPD │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── log_marg_prob_node.m │ │ │ ├── root_gaussian_CPD.m │ │ │ └── update_params_complete.m │ │ ├── @tabular_chance_node │ │ │ ├── CPD_to_upot.m │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ └── tabular_chance_node.m │ │ └── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ └── mk_isolated_tabular_CPD.m ├── CVS │ ├── Entries │ ├── Entries.Log │ ├── Repository │ └── Root ├── README.txt ├── copyright.txt ├── examples │ ├── CVS │ │ ├── Entries │ │ ├── Repository │ │ └── Root │ ├── dummy │ ├── dynamic │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── HHMM │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Entries.Log │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── Map │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ ├── Old │ │ │ │ │ ├── CVS │ │ │ │ │ │ ├── Entries │ │ │ │ │ │ ├── Repository │ │ │ │ │ │ └── Root │ │ │ │ │ └── mk_map_hhmm.m │ │ │ │ ├── disp_map_hhmm.m │ │ │ │ ├── learn_map.m │ │ │ │ ├── mk_map_hhmm.m │ │ │ │ ├── mk_rnd_map_hhmm.m │ │ │ │ └── sample_from_map.m │ │ │ ├── Mgram │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ ├── Old │ │ │ │ │ ├── CVS │ │ │ │ │ │ ├── Entries │ │ │ │ │ │ ├── Repository │ │ │ │ │ │ └── Root │ │ │ │ │ └── mgram2.m │ │ │ │ ├── letter2num.m │ │ │ │ ├── mgram1.m │ │ │ │ ├── mgram2.m │ │ │ │ ├── mgram3.m │ │ │ │ └── num2letter.m │ │ │ ├── Motif │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ ├── fixed_args_mk_motif_hhmm.m │ │ │ │ ├── learn_motif_hhmm.m │ │ │ │ ├── mk_motif_hhmm.m │ │ │ │ └── sample_motif_hhmm.m │ │ │ ├── Old │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ ├── mk_abcd_hhmm.m │ │ │ │ ├── mk_arrow_alpha_hhmm3.m │ │ │ │ ├── mk_hhmm2.m │ │ │ │ ├── mk_hhmm3.m │ │ │ │ ├── mk_hhmm3_args.m │ │ │ │ ├── motif_hhmm.m │ │ │ │ └── remove_hhmm_end_state.m │ │ │ ├── Square │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ ├── Old │ │ │ │ │ ├── CVS │ │ │ │ │ │ ├── Entries │ │ │ │ │ │ ├── Repository │ │ │ │ │ │ └── Root │ │ │ │ │ ├── learn_square_hhmm.m │ │ │ │ │ ├── mk_square_hhmm.m │ │ │ │ │ ├── plot_square_hhmm.m │ │ │ │ │ └── sample_square_hhmm.m │ │ │ │ ├── get_square_data.m │ │ │ │ ├── hhmm_inference.m │ │ │ │ ├── is_F2_true_D3.m │ │ │ │ ├── learn_square_hhmm_cts.m │ │ │ │ ├── learn_square_hhmm_discrete.m │ │ │ │ ├── mk_square_hhmm.m │ │ │ │ ├── plot_square_hhmm.m │ │ │ │ ├── sample_square_hhmm_cts.m │ │ │ │ ├── sample_square_hhmm_discrete.m │ │ │ │ ├── square4.mat │ │ │ │ ├── square4_cases.mat │ │ │ │ ├── test_square_fig.m │ │ │ │ └── test_square_fig.mat │ │ │ ├── abcd_hhmm.m │ │ │ ├── add_hhmm_end_state.m │ │ │ ├── hhmm_jtree_clqs.m │ │ │ ├── mk_hhmm.m │ │ │ ├── mk_hhmm_topo.m │ │ │ ├── mk_hhmm_topo_F1.m │ │ │ ├── pretty_print_hhmm_parse.m │ │ │ └── remove_hhmm_end_state.m │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── chmm1.m │ │ │ ├── cmp_inference.m │ │ │ ├── kalman1.m │ │ │ ├── old.water1.m │ │ │ ├── online1.m │ │ │ ├── online2.m │ │ │ └── scg_dbn.m │ │ ├── SLAM │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── Old │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ ├── offline_loopy_slam.m │ │ │ │ ├── paskin1.m │ │ │ │ ├── skf_data_assoc_gmux2.m │ │ │ │ └── slam_kf.m │ │ │ ├── mk_gmux_robot_dbn.m │ │ │ ├── mk_linear_slam.m │ │ │ ├── slam_kf.m │ │ │ ├── slam_offline_loopy.m │ │ │ ├── slam_partial_kf.m │ │ │ └── slam_stationary_loopy.m │ │ ├── arhmm1.m │ │ ├── bat1.m │ │ ├── bkff1.m │ │ ├── chmm1.m │ │ ├── cmp_inference_dbn.m │ │ ├── cmp_learning_dbn.m │ │ ├── cmp_online_inference.m │ │ ├── dhmm1.m │ │ ├── ehmm1.m │ │ ├── fhmm_infer.m │ │ ├── filter_test1.m │ │ ├── ghmm1.m │ │ ├── ho1.m │ │ ├── jtree_clq_test.m │ │ ├── jtree_clq_test2.m │ │ ├── kalman1.m │ │ ├── kjaerulff1.m │ │ ├── loopy_dbn1.m │ │ ├── mhmm1.m │ │ ├── mildew1.m │ │ ├── mk_bat_dbn.m │ │ ├── mk_chmm.m │ │ ├── mk_collage_from_clqs.m │ │ ├── mk_fhmm.m │ │ ├── mk_mildew_dbn.m │ │ ├── mk_orig_bat_dbn.m │ │ ├── mk_orig_water_dbn.m │ │ ├── mk_ps_from_clqs.m │ │ ├── mk_uffe_dbn.m │ │ ├── mk_water_dbn.m │ │ ├── orig_water1.m │ │ ├── reveal1.m │ │ ├── scg_dbn.m │ │ ├── skf_data_assoc_gmux.m │ │ ├── viterbi1.m │ │ ├── water1.m │ │ └── water2.m │ ├── limids │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── amnio.m │ │ ├── asia_dt1.m │ │ ├── id1.m │ │ ├── oil1.m │ │ └── pigs1.m │ └── static │ │ ├── Belprop │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── belprop_loop1_discrete.m │ │ ├── belprop_loop1_gauss.m │ │ ├── belprop_loopy_cg.m │ │ ├── belprop_loopy_discrete.m │ │ ├── belprop_loopy_gauss.m │ │ ├── belprop_polytree_cg.m │ │ ├── belprop_polytree_discrete.m │ │ ├── belprop_polytree_gauss.m │ │ ├── bp1.m │ │ └── gmux1.m │ │ ├── Brutti │ │ ├── Belief_IOhmm.m │ │ ├── Belief_hmdt.m │ │ ├── Belief_hme.m │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ └── Sigmoid_Belief.m │ │ ├── CVS │ │ ├── Entries │ │ ├── Entries.Log │ │ ├── Repository │ │ └── Root │ │ ├── HME │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── HMEforMatlab.jpg │ │ ├── README │ │ ├── fhme.m │ │ ├── gen_data.m │ │ ├── hme_class_plot.m │ │ ├── hme_reg_plot.m │ │ ├── hme_topobuilder.m │ │ ├── hmemenu.m │ │ ├── test_data_class.mat │ │ ├── test_data_class2.mat │ │ ├── test_data_reg.mat │ │ ├── train_data_class.mat │ │ └── train_data_reg.mat │ │ ├── Misc │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── mixexp_data.txt │ │ ├── mixexp_graddesc.m │ │ ├── mixexp_plot.m │ │ └── sprinkler.bif │ │ ├── Models │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ └── mk_hmm_bnet.m │ │ ├── mk_alarm_bnet.m │ │ ├── mk_asia_bnet.m │ │ ├── mk_cancer_bnet.m │ │ ├── mk_car_bnet.m │ │ ├── mk_hmm_bnet.m │ │ ├── mk_ideker_bnet.m │ │ ├── mk_incinerator_bnet.m │ │ ├── mk_markov_chain_bnet.m │ │ ├── mk_minimal_qmr_bnet.m │ │ ├── mk_qmr_bnet.m │ │ └── mk_vstruct_bnet.m │ │ ├── SCG │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── scg1.m │ │ ├── scg2.m │ │ ├── scg3.m │ │ ├── scg_3node.m │ │ └── scg_unstable.m │ │ ├── StructLearn │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── bic1.m │ │ ├── cooper_yoo.m │ │ ├── k2demo1.m │ │ ├── mcmc1.m │ │ ├── model_select1.m │ │ ├── model_select2.m │ │ ├── pc1.m │ │ └── pc2.m │ │ ├── Zoubin │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── README │ │ ├── csum.m │ │ ├── ffa.m │ │ ├── mfa.m │ │ ├── mfa_cl.m │ │ ├── mfademo.m │ │ ├── rdiv.m │ │ ├── rprod.m │ │ └── rsum.m │ │ ├── brainy.m │ │ ├── burglar-alarm-net.lisp.txt │ │ ├── burglary.m │ │ ├── cg1.m │ │ ├── cg2.m │ │ ├── cmp_inference_static.m │ │ ├── discrete1.m │ │ ├── discrete2.m │ │ ├── discrete3.m │ │ ├── dtree │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── test_housing.m │ │ ├── test_restaurants.m │ │ ├── test_zoo1.m │ │ ├── tmp.dot │ │ └── transform_data_into_bnt_format.m │ │ ├── fa1.m │ │ ├── fgraph │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── fg1.m │ │ ├── fg2.m │ │ ├── fg3.m │ │ ├── fg_mrf1.m │ │ └── fg_mrf2.m │ │ ├── gaussian1.m │ │ ├── gaussian2.m │ │ ├── gibbs_test1.m │ │ ├── learn1.m │ │ ├── lw1.m │ │ ├── mfa1.m │ │ ├── mixVonMises.m │ │ ├── mixexp1.m │ │ ├── mixexp2.m │ │ ├── mixexp3.m │ │ ├── mog1.m │ │ ├── mpe1.m │ │ ├── mpe2.m │ │ ├── nodeorderExample.m │ │ ├── qmr1.m │ │ ├── qmr2.m │ │ ├── sample1.m │ │ ├── softev1.m │ │ ├── softmax1.m │ │ └── sprinkler1.m ├── general │ ├── CVS │ │ ├── Entries │ │ ├── Entries.Log │ │ ├── Repository │ │ └── Root │ ├── Old │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── bnet_to_gdl_graph.m │ │ ├── calc_mpe.m │ │ ├── calc_mpe_bucket.m │ │ ├── calc_mpe_dbn.m │ │ ├── calc_mpe_given_inf_engine.m │ │ ├── calc_mpe_global.m │ │ ├── compute_interface_nodes.m │ │ └── mk_gdl_graph.m │ ├── add_ev_to_dmarginal.m │ ├── add_evidence_to_gmarginal.m │ ├── add_evidence_to_vmarginal.m │ ├── bnet_to_fgraph.m │ ├── compute_fwd_interface.m │ ├── compute_interface_nodes.m │ ├── compute_joint_pot.m │ ├── compute_minimal_interface.m │ ├── convert_dbn_CPDs_to_pots.m │ ├── convert_dbn_CPDs_to_tables.m │ ├── convert_dbn_CPDs_to_tables1.m │ ├── convert_dbn_CPDs_to_tables_slow.m │ ├── dbn_to_bnet.m │ ├── dbn_to_hmm.m │ ├── determine_elim_constraints.m │ ├── dispcpt.m │ ├── do_intervention.m │ ├── dsep.m │ ├── dsep_test.m │ ├── enumerate_scenarios.m │ ├── fgraph_to_bnet.m │ ├── hodbn_to_bnet.m │ ├── is_mnet.m │ ├── linear_gaussian_to_cpot.m │ ├── linear_vonMises_to_cpot.m │ ├── log_lik_complete.m │ ├── log_marg_lik_complete.m │ ├── mk_bnet.m │ ├── mk_dbn.m │ ├── mk_fgraph.m │ ├── mk_fgraph_given_ev.m │ ├── mk_higher_order_dbn.m │ ├── mk_limid.m │ ├── mk_mnet.m │ ├── mk_mrf2.m │ ├── mk_mutilated_samples.m │ ├── mk_named_CPT.m │ ├── mk_slice_and_half_dbn.m │ ├── noisyORtoTable.m │ ├── partition_dbn_nodes.m │ ├── partition_matrix_vec_3.m │ ├── sample_bnet.m │ ├── sample_bnet_nocell.m │ ├── sample_dbn.m │ ├── score_bnet_complete.m │ ├── shrink_obs_dims_in_gaussian.m │ ├── shrink_obs_dims_in_table.m │ ├── solve_limid.m │ ├── unroll_dbn_topology.m │ ├── unroll_higher_order_topology.m │ └── unroll_set.m ├── inference │ ├── @inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── marginal_family_pot.m │ │ │ └── observed_nodes.m │ │ ├── bnet_from_engine.m │ │ ├── get_field.m │ │ ├── inf_engine.m │ │ ├── marginal_family.m │ │ ├── set_fields.m │ │ └── update_engine.m │ ├── CVS │ │ ├── Entries │ │ ├── Entries.Log │ │ ├── Repository │ │ └── Root │ ├── dummy │ ├── dynamic │ │ ├── @bk_ff_hmm_inf_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Entries.Log │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── bk_ff_hmm_inf_engine.m │ │ │ ├── dbn_init_bel.m │ │ │ ├── dbn_marginal_from_bel.m │ │ │ ├── dbn_predict_bel.m │ │ │ ├── dbn_update_bel.m │ │ │ ├── dbn_update_bel1.m │ │ │ ├── enter_evidence.m │ │ │ ├── marginal_family.m │ │ │ ├── marginal_nodes.m │ │ │ └── private │ │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ │ ├── bk_ff_fb.m │ │ │ │ ├── combine_marginals_into_joint.m │ │ │ │ ├── dbn_to_hmm.m │ │ │ │ ├── mk_hmm_obs_lik_mat.m │ │ │ │ ├── mk_hmm_obs_lik_vec.m │ │ │ │ ├── mk_hmm_obs_lik_vec1.m │ │ │ │ └── project_joint_onto_marginals.m │ │ ├── @bk_inf_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── bk_inf_engine.m │ │ │ ├── dbn_init_bel.m │ │ │ ├── dbn_marginal_from_bel.m │ │ │ ├── dbn_update_bel.m │ │ │ ├── dbn_update_bel1.m │ │ │ ├── enter_evidence.m │ │ │ ├── enter_soft_evidence.m │ │ │ ├── marginal_family.m │ │ │ ├── marginal_nodes.m │ │ │ └── update_engine.m │ │ ├── @cbk_inf_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── cbk_inf_engine.m │ │ │ ├── dbn_init_bel.m │ │ │ ├── dbn_marginal_from_bel.m │ │ │ ├── dbn_update_bel.m │ │ │ ├── dbn_update_bel1.m │ │ │ ├── enter_evidence.m │ │ │ ├── enter_soft_evidence.m │ │ │ ├── junk │ │ │ ├── marginal_family.m │ │ │ ├── marginal_nodes.m │ │ │ └── update_engine.m │ │ ├── @ff_inf_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── Old │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ ├── enter_soft_evidence.m │ │ │ │ ├── enter_soft_evidence1.m │ │ │ │ └── marginal_family.m │ │ │ ├── enter_evidence.m │ │ │ ├── enter_soft_evidence.m │ │ │ ├── ff_inf_engine.m │ │ │ ├── filter_evidence.m │ │ │ ├── marginal_family.m │ │ │ ├── marginal_nodes.m │ │ │ └── smooth_evidence.m │ │ ├── @frontier_inf_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── enter_evidence.m │ │ │ ├── enter_soft_evidence.m │ │ │ ├── frontier_inf_engine.m │ │ │ ├── marginal_family.m │ │ │ ├── marginal_nodes.m │ │ │ └── set_fwdback.m │ │ ├── @hmm_inf_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── Old │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ ├── dhmm_inf_engine.m │ │ │ │ ├── marginal_family.m │ │ │ │ └── marginal_nodes.m │ │ │ ├── enter_evidence.m │ │ │ ├── find_mpe.m │ │ │ ├── fwdback_twoslice.m │ │ │ ├── hmm_inf_engine.m │ │ │ ├── marginal_family.m │ │ │ ├── marginal_nodes.m │ │ │ ├── private │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ ├── mk_hmm_obs_lik_matrix.m │ │ │ │ └── mk_hmm_obs_lik_vec.m │ │ │ └── update_engine.m │ │ ├── @jtree_dbn_inf_engine │ │ │ ├── Broken │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ ├── enter_soft_evidence1.m │ │ │ │ ├── enter_soft_evidence2.m │ │ │ │ ├── enter_soft_evidence3.m │ │ │ │ ├── enter_soft_evidence4.m │ │ │ │ └── marginal_nodes.m │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Entries.Log │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── Old │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ ├── enter_soft_evidence_nonint.m │ │ │ │ ├── enter_soft_evidence_trans.m │ │ │ │ ├── jtree_dbn_inf_engine.m │ │ │ │ ├── jtree_dbn_inf_engine1.m │ │ │ │ └── jtree_dbn_inf_engine2.m │ │ │ ├── enter_evidence.m │ │ │ ├── enter_soft_evidence.m │ │ │ ├── jtree_dbn_inf_engine.m │ │ │ ├── marginal_family.m │ │ │ └── marginal_nodes.m │ │ ├── @jtree_unrolled_dbn_inf_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── Old │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ ├── marginal_family.m │ │ │ │ └── marginal_nodes.m │ │ │ ├── enter_evidence.m │ │ │ ├── jtree_unrolled_dbn_inf_engine.m │ │ │ ├── marginal_family.m │ │ │ ├── marginal_nodes.m │ │ │ └── update_engine.m │ │ ├── @kalman_inf_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── enter_evidence.m │ │ │ ├── kalman_inf_engine.m │ │ │ ├── marginal_nodes.m │ │ │ ├── private │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ ├── dbn_to_lds.m │ │ │ │ └── extract_params_from_gbn.m │ │ │ └── update_engine.m │ │ ├── @pearl_dbn_inf_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── Old │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ ├── correct_smooth.m │ │ │ │ ├── enter_evidence.m │ │ │ │ ├── filter_evidence.m │ │ │ │ ├── filter_evidence_obj_oriented.m │ │ │ │ ├── smooth_evidence.m │ │ │ │ ├── smooth_evidence_fast.m │ │ │ │ └── wrong_smooth.m │ │ │ ├── enter_evidence.m │ │ │ ├── enter_soft_ev.m │ │ │ ├── marginal_nodes.m │ │ │ ├── pearl_dbn_inf_engine.m │ │ │ └── private │ │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ │ └── init_pearl_dbn_ev_msgs.m │ │ ├── @pearl_unrolled_dbn_inf_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── enter_evidence.m │ │ │ ├── marginal_family.m │ │ │ ├── marginal_nodes.m │ │ │ ├── pearl_unrolled_dbn_inf_engine.m │ │ │ └── update_engine.m │ │ ├── @stable_ho_inf_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── enter_evidence.m │ │ │ ├── marginal_family.m │ │ │ ├── marginal_nodes.m │ │ │ ├── stable_ho_inf_engine.m │ │ │ ├── test_ho_inf_enginge.m │ │ │ └── update_engine.m │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ └── dummy │ ├── online │ │ ├── @filter_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── bnet_from_engine.m │ │ │ ├── enter_evidence.m │ │ │ ├── filter_engine.m │ │ │ ├── marginal_family.m │ │ │ └── marginal_nodes.m │ │ ├── @hmm_2TBN_inf_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Entries.Log │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── back.m │ │ │ ├── backT.m │ │ │ ├── fwd.m │ │ │ ├── fwd1.m │ │ │ ├── hmm_2TBN_inf_engine.m │ │ │ ├── marginal_family.m │ │ │ ├── marginal_nodes.m │ │ │ ├── private │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ └── mk_hmm_obs_lik_vec.m │ │ │ └── update_engine.m │ │ ├── @jtree_2TBN_inf_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Entries.Log │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── Old │ │ │ │ ├── CVS │ │ │ │ │ ├── Entries │ │ │ │ │ ├── Repository │ │ │ │ │ └── Root │ │ │ │ └── jtree_2TBN_inf_engine.m │ │ │ ├── back.m │ │ │ ├── back1.m │ │ │ ├── back1_mpe.m │ │ │ ├── backT.m │ │ │ ├── backT_mpe.m │ │ │ ├── back_mpe.m │ │ │ ├── fwd.m │ │ │ ├── fwd1.m │ │ │ ├── jtree_2TBN_inf_engine.m │ │ │ ├── marginal_family.m │ │ │ ├── marginal_nodes.m │ │ │ └── set_fields.m │ │ ├── @jtree_sparse_2TBN_inf_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── back.m │ │ │ ├── back1.m │ │ │ ├── backT.m │ │ │ ├── enter_evidence.m │ │ │ ├── fwd.m │ │ │ ├── fwd1.m │ │ │ ├── jtree_sparse_2TBN_inf_engine.m │ │ │ ├── marginal_family.m │ │ │ └── marginal_nodes.m │ │ ├── @smoother_engine │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── bnet_from_engine.m │ │ │ ├── enter_evidence.m │ │ │ ├── find_mpe.m │ │ │ ├── marginal_family.m │ │ │ ├── marginal_nodes.m │ │ │ ├── smoother_engine.m │ │ │ └── update_engine.m │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ └── dummy │ └── static │ │ ├── @belprop_fg_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── belprop_fg_inf_engine.m │ │ ├── enter_evidence.m │ │ ├── find_mpe.m │ │ ├── loopy_converged.m │ │ ├── marginal_nodes.m │ │ └── set_params.m │ │ ├── @belprop_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── belprop_gdl_inf_engine.m │ │ │ ├── belprop_inf_engine_nostr.m │ │ │ ├── enter_evidence.m │ │ │ ├── enter_evidence1.m │ │ │ └── marginal_domain.m │ │ ├── belprop_inf_engine.m │ │ ├── enter_evidence.m │ │ ├── find_mpe.m │ │ ├── loopy_converged.m │ │ ├── marginal_family.m │ │ ├── marginal_nodes.m │ │ └── private │ │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ │ ├── junk │ │ │ ├── parallel_protocol.m │ │ │ └── tree_protocol.m │ │ ├── @belprop_mrf2_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── belprop_mrf2_inf_engine.m │ │ ├── bp_mrf2.m │ │ ├── enter_soft_evidence.m │ │ ├── find_mpe.m │ │ ├── marginal_nodes.m │ │ └── set_params.m │ │ ├── @cond_gauss_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── cond_gauss_inf_engine.m │ │ ├── enter_evidence.m │ │ └── marginal_nodes.m │ │ ├── @enumerative_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── enter_evidence.m │ │ ├── enumerative_inf_engine.m │ │ └── marginal_nodes.m │ │ ├── @gaussian_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── enter_evidence.m │ │ ├── gaussian_inf_engine.m │ │ ├── marginal_nodes.m │ │ └── private │ │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ │ └── extract_params_from_gbn.m │ │ ├── @gibbs_sampling_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── enter_evidence.m │ │ ├── gibbs_sampling_inf_engine.m │ │ ├── marginal_nodes.m │ │ └── private │ │ │ ├── CPT.m │ │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ │ ├── compute_children.m │ │ │ ├── compute_families.m │ │ │ ├── compute_families_dbn.m │ │ │ ├── compute_posterior.c │ │ │ ├── compute_posterior_dbn.m │ │ │ ├── compute_strides.m │ │ │ ├── get_cpts.m │ │ │ ├── get_slice_dbn.c │ │ │ ├── get_slice_dbn.m │ │ │ ├── my_sample_discrete.m │ │ │ └── sample_single_discrete.c │ │ ├── @global_joint_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── enter_evidence.m │ │ ├── find_mpe.m │ │ ├── global_joint_inf_engine.m │ │ ├── marginal_family.m │ │ └── marginal_nodes.m │ │ ├── @jtree_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── collect_evidence.m │ │ │ ├── distribute_evidence.m │ │ │ ├── enter_evidence.m │ │ │ └── enter_soft_evidence.m │ │ ├── cliques_from_engine.m │ │ ├── clq_containing_nodes.m │ │ ├── collect_evidence.m │ │ ├── distribute_evidence.m │ │ ├── enter_evidence.m │ │ ├── enter_soft_evidence.m │ │ ├── find_max_config.m │ │ ├── find_mpe.m │ │ ├── init_pot.m │ │ ├── jtree_inf_engine.m │ │ ├── marginal_family.m │ │ ├── marginal_nodes.m │ │ └── set_fields.m │ │ ├── @jtree_limid_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── marginal_family.m │ │ │ └── marginal_nodes_SS.m │ │ ├── enter_evidence.m │ │ ├── jtree_limid_inf_engine.m │ │ ├── marginal_family.m │ │ └── marginal_nodes.m │ │ ├── @jtree_mnet_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── enter_evidence.m │ │ ├── find_mpe.m │ │ └── jtree_mnet_inf_engine.m │ │ ├── @jtree_sparse_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── cliques_from_engine.m │ │ ├── clq_containing_nodes.m │ │ ├── collect_evidence.c │ │ ├── distribute_evidence.c │ │ ├── enter_evidence.m │ │ ├── enter_soft_evidence.m │ │ ├── init_pot.c │ │ ├── jtree_sparse_inf_engine.m │ │ ├── marginal_family.m │ │ ├── marginal_nodes.m │ │ ├── old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── collect_evidence.c │ │ │ ├── distribute_evidence.c │ │ │ ├── init_pot.c │ │ │ ├── init_pot1.c │ │ │ └── init_pot1.m │ │ └── set_fields.m │ │ ├── @likelihood_weighting_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── enter_evidence.m │ │ ├── likelihood_weighting_inf_engine.m │ │ └── marginal_nodes.m │ │ ├── @pearl_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── bethe_free_energy.m │ │ ├── enter_evidence.m │ │ ├── loopy_converged.m │ │ ├── marginal_family.m │ │ ├── marginal_nodes.m │ │ ├── pearl_inf_engine.m │ │ ├── pearl_inf_engine.m~ │ │ └── private │ │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ │ ├── compute_bel.m │ │ │ ├── parallel_protocol.m │ │ │ ├── parallel_protocol.m~ │ │ │ ├── prod_lambda_msgs.m │ │ │ └── tree_protocol.m │ │ ├── @quickscore_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── enter_evidence.m │ │ ├── marginal_nodes.m │ │ ├── private │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── C_quickscore.c │ │ │ ├── nr.h │ │ │ ├── nrutil.c │ │ │ ├── nrutil.h │ │ │ └── quickscore.m │ │ └── quickscore_inf_engine.m │ │ ├── @stab_cond_gauss_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ └── initialize_engine.m │ │ ├── README │ │ ├── clq_containing_nodes.m │ │ ├── enter_evidence.m │ │ ├── marginal_difclq_nodes.m │ │ ├── marginal_nodes.m │ │ ├── marginal_singleclq_nodes.m │ │ ├── problems.txt │ │ ├── push.m │ │ ├── push_pot_toclique.m │ │ └── stab_cond_gauss_inf_engine.m │ │ ├── @var_elim_inf_engine │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── enter_evidence.m │ │ ├── find_mpe.m │ │ ├── marginal_nodes.m │ │ └── var_elim_inf_engine.m │ │ ├── CVS │ │ ├── Entries │ │ ├── Entries.Log │ │ ├── Repository │ │ └── Root │ │ └── dummy ├── installC_BNT.m ├── installC_graph.m ├── learning │ ├── CVS │ │ ├── Entries │ │ ├── Repository │ │ └── Root │ ├── CovMat.m │ ├── bayes_update_params.m │ ├── bic_score_family.m │ ├── compute_cooling_schedule.m │ ├── dirichlet_score_family.m │ ├── kpm_learn_struct_mcmc.m │ ├── learn_params.m │ ├── learn_params_dbn.m │ ├── learn_params_dbn_em.m │ ├── learn_params_em.m │ ├── learn_struct_K2.m │ ├── learn_struct_dbn_reveal.m │ ├── learn_struct_mcmc.m │ ├── learn_struct_pdag_ic_star.m │ ├── learn_struct_pdag_pc.m │ ├── learn_struct_pdag_pc_constrain.m │ ├── mcmc_sample_to_hist.m │ ├── mk_schedule.m │ ├── mk_tetrad_data_file.m │ ├── score_dags_old.m │ ├── score_dags_wocache.m │ └── score_family_wocache.m ├── license.gpl.txt ├── potentials │ ├── @cgpot │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── normalize_pot.m │ │ │ ├── set_domain_pot.m │ │ │ └── simple_marginalize_pot.m │ │ ├── cg_can_to_mom.m │ │ ├── cg_mom_to_can.m │ │ ├── cgpot.m │ │ ├── display.m │ │ ├── divide_by_pot.m │ │ ├── domain_pot.m │ │ ├── enter_cts_evidence_pot.m │ │ ├── enter_discrete_evidence_pot.m │ │ ├── marginalize_pot.m │ │ ├── multiply_by_pot.m │ │ ├── multiply_pots.m │ │ ├── normalize_pot.m │ │ ├── pot_to_marginal.m │ │ └── set_domain_pot.m │ ├── @cpot │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Entries.Log │ │ │ ├── Repository │ │ │ └── Root │ │ ├── Old │ │ │ ├── CVS │ │ │ │ ├── Entries │ │ │ │ ├── Repository │ │ │ │ └── Root │ │ │ ├── cpot_to_mpot.m │ │ │ └── normalize_pot.convert.m │ │ ├── cpot.m │ │ ├── cpot_to_mpot.m │ │ ├── display.m │ │ ├── divide_by_pot.m │ │ ├── domain_pot.m │ │ ├── enter_cts_evidence_pot.m │ │ ├── marginalize_pot.m │ │ ├── multiply_by_pot.m │ │ ├── multiply_pots.m │ │ ├── normalize_pot.m │ │ ├── pot_to_marginal.m │ │ ├── rescale_pot.m │ │ └── set_domain_pot.m │ ├── @dpot │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── approxeq_pot.m │ │ ├── display.m │ │ ├── divide_by_pot.m │ │ ├── domain_pot.m │ │ ├── dpot.m │ │ ├── dpot_to_table.m │ │ ├── find_most_prob_entry.m │ │ ├── get_fields.m │ │ ├── marginalize_pot.m │ │ ├── multiply_by_pot.m │ │ ├── multiply_pots.m │ │ ├── normalize_pot.m │ │ ├── pot_to_marginal.m │ │ ├── set_domain_pot.m │ │ ├── subsasgn.m │ │ └── subsref.m │ ├── @mpot │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── display.m │ │ ├── marginalize_pot.m │ │ ├── mpot.m │ │ ├── mpot_to_cpot.m │ │ ├── normalize_pot.m │ │ ├── pot_to_marginal.m │ │ ├── rescale_pot.m │ │ └── set_domain_pot.m │ ├── @scgcpot │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── marginalize_pot.m │ │ ├── normalize_pot.m │ │ ├── reduce_pot.m │ │ ├── rescale_pot.m │ │ └── scgcpot.m │ ├── @scgpot │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── README │ │ ├── combine_pots.m │ │ ├── complement_pot.m │ │ ├── direct_combine_pots.m │ │ ├── extension_pot.m │ │ ├── marginalize_pot.m │ │ ├── normalize_pot.m │ │ ├── pot_to_marginal.m │ │ ├── recursive_combine_pots.m │ │ ├── reduce_pot.m │ │ └── scgpot.m │ ├── @upot │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── approxeq_pot.m │ │ ├── display.m │ │ ├── divide_by_pot.m │ │ ├── marginalize_pot.m │ │ ├── multiply_by_pot.m │ │ ├── normalize_pot.m │ │ ├── pot_to_marginal.m │ │ ├── upot.m │ │ └── upot_to_opt_policy.m │ ├── CPD_to_pot.m │ ├── CVS │ │ ├── Entries │ │ ├── Entries.Log │ │ ├── Repository │ │ └── Root │ ├── Old │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ └── comp_eff_node_sizes.m │ ├── README │ ├── Tables │ │ ├── CVS │ │ │ ├── Entries │ │ │ ├── Repository │ │ │ └── Root │ │ ├── divide_by_sparse_table.c │ │ ├── divide_by_table.c │ │ ├── divide_by_table.m │ │ ├── extend_domain_table.m │ │ ├── marg_sparse_table.c │ │ ├── marg_table.c │ │ ├── marg_table.m │ │ ├── marg_tableC.c │ │ ├── marg_tableM.m │ │ ├── mult_by_sparse_table.c │ │ ├── mult_by_table.c │ │ ├── mult_by_table.m │ │ ├── mult_by_table2.m │ │ ├── mult_by_tableC.c │ │ ├── mult_by_tableM.m │ │ ├── mult_by_table_global.m │ │ ├── rep_mult.c │ │ └── repmat_and_mult.c │ ├── check_for_cd_arcs.m │ ├── determine_pot_type.m │ ├── genops.c │ └── mk_initial_pot.m ├── test_BNT.m └── uninstallC_BNT.m ├── CVS ├── Entries ├── Entries.Log ├── Repository └── Root ├── ChangeLog.Sourceforge.txt ├── ChangeLog.txt ├── GraphViz ├── CVS │ ├── Entries │ ├── Entries.Log │ ├── Repository │ └── Root ├── Old │ ├── CVS │ │ ├── Entries │ │ ├── Repository │ │ └── Root │ ├── dot_to_graph.m │ ├── draw_dot.m │ ├── draw_graph.m │ ├── graphToDot.m │ └── pre_pesha_graph_to_dot.m ├── README.txt ├── approxeq.m ├── arrow.m ├── dot_to_graph.m ├── draw_dbn.m ├── draw_dbn_test.m ├── draw_dot.m ├── draw_graph.m ├── draw_graph_test.m ├── draw_hmm.m ├── editGraphGUI.m ├── graph_to_dot.m ├── make_layout.m ├── my_call.m └── process_options.m ├── HMM ├── CVS │ ├── Entries │ ├── Repository │ └── Root ├── README.txt ├── dhmm_em.m ├── dhmm_em_demo.m ├── dhmm_em_online.m ├── dhmm_em_online_demo.m ├── dhmm_logprob.m ├── dhmm_logprob_brute_force.m ├── dhmm_logprob_path.m ├── dhmm_sample.m ├── dhmm_sample_endstate.m ├── fixed_lag_smoother.m ├── fixed_lag_smoother_demo.m ├── fwdback.m ├── gausshmm_train_observed.m ├── mc_sample.m ├── mc_sample_endstate.m ├── mdp_sample.m ├── mhmmParzen_train_observed.m ├── mhmm_em.m ├── mhmm_em_demo.m ├── mhmm_logprob.m ├── mhmm_sample.m ├── mk_leftright_transmat.m ├── mk_rightleft_transmat.m ├── pomdp_sample.m ├── testHMM.m ├── transmat_train_observed.m └── viterbi_path.m ├── KPMstats ├── CVS │ ├── Entries │ ├── Repository │ └── Root ├── KLgauss.m ├── README.txt ├── beta_sample.m ├── chisquared_histo.m ├── chisquared_prob.m ├── chisquared_readme.txt ├── chisquared_table.m ├── clg_Mstep.m ├── clg_Mstep_simple.m ├── clg_prob.m ├── clvm_Mstep.m ├── condGaussToJoint.m ├── cond_indep_fisher_z.m ├── condgaussTrainObserved.m ├── condgauss_sample.m ├── convertBinaryLabels.m ├── cwr_demo.m ├── cwr_em.m ├── cwr_predict.m ├── cwr_prob.m ├── cwr_readme.txt ├── cwr_test.m ├── dirichlet_sample.m ├── dirichletpdf.m ├── dirichletrnd.m ├── distchck.m ├── eigdec.m ├── est_transmat.m ├── fit_paritioned_model_testfn.m ├── fit_partitioned_model.m ├── gamma_sample.m ├── gaussian_prob.m ├── gaussian_sample.m ├── histCmpChi2.m ├── linear_regression.m ├── logist2.m ├── logist2Apply.m ├── logist2ApplyRegularized.m ├── logist2Fit.m ├── logist2FitRegularized.m ├── logistK.m ├── logistK_eval.m ├── marginalize_gaussian.m ├── matrix_T_pdf.m ├── matrix_normal_pdf.m ├── mc_stat_distrib.m ├── mixgauss_Mstep.m ├── mixgauss_classifier_apply.m ├── mixgauss_classifier_train.m ├── mixgauss_em.m ├── mixgauss_init.m ├── mixgauss_prob.m ├── mixgauss_prob_test.m ├── mixgauss_sample.m ├── mixvonMises_Mstep.m ├── mkPolyFvec.m ├── mk_unit_norm.m ├── multinomial_prob.m ├── multinomial_sample.m ├── multipdf.m ├── multirnd.m ├── normal_coef.m ├── partial_corr_coef.m ├── parzen.m ├── parzenC.c ├── parzenC.dll ├── parzenC_test.m ├── parzen_fit_select_unif.m ├── pca.m ├── rndcheck.m ├── sample.m ├── sample_discrete.m ├── sample_gaussian.m ├── standardize.m ├── student_t_logprob.m ├── student_t_prob.m ├── test_dir.m ├── unidrndKPM.m ├── unif_discrete_sample.m ├── vonMises_prob.m └── weightedRegression.m ├── KPMtools ├── CVS │ ├── Entries │ ├── Repository │ └── Root ├── README.txt ├── approx_unique.m ├── approxeq.m ├── argmax.m ├── argmin.m ├── asdemo.html ├── asdemo.m ├── asort.m ├── assertBNT.m ├── assignEdgeNums.m ├── assign_cols.m ├── axis_pct.m ├── bipartiteMatchingDemo.m ├── bipartiteMatchingDemoPlot.m ├── bipartiteMatchingHungarian.m ├── bipartiteMatchingIntProg.m ├── block.m ├── cell2matPad.m ├── cell2num.m ├── centeringMatrix.m ├── checkpsd.m ├── chi2inv.m ├── choose.m ├── collapse_mog.m ├── colmult.c ├── computeROC.m ├── compute_counts.m ├── conf2mahal.m ├── cross_entropy.m ├── dirKPM.m ├── div.m ├── draw_circle.m ├── draw_ellipse.m ├── draw_ellipse_axes.m ├── em_converged.m ├── entropy.m ├── exportfig.m ├── extend_domain_table.m ├── factorial.m ├── filepartsLast.m ├── find_equiv_posns.m ├── fullfileKPM.m ├── genpathKPM.m ├── hash_add.m ├── hash_del.m ├── hash_lookup.m ├── hsvKPM.m ├── hungarian.m ├── image_rgb.m ├── imresizeAspect.m ├── ind2subv.m ├── ind2subvKPM.c ├── ind2subvKPM.m ├── ind2subvMinka.m ├── ind2subvTest.m ├── initFigures.m ├── installC_KPMtools.m ├── is_psd.m ├── is_stochastic.m ├── isemptycell.m ├── isequalKPM.m ├── isposdef.m ├── isscalarBNT.m ├── isvectorBNT.m ├── junk.c ├── loadcell.m ├── logb.m ├── logdet.m ├── logsum.m ├── logsum_simple.m ├── logsum_test.m ├── logsumexp.m ├── logsumexpv.m ├── mahal2conf.m ├── marg_table.m ├── marginalize_table.m ├── matprint.m ├── max_mult.c ├── max_mult.m ├── mexutil.c ├── mexutil.h ├── mk_multi_index.m ├── mk_stochastic.m ├── mkdirKPM.m ├── montageKPM.m ├── montageKPM2.m ├── montageKPM3.m ├── mult_by_table.m ├── myintersect.m ├── myismember.m ├── myismember.m~ ├── myones.m ├── myplot.m ├── myrand.m ├── myrepmat.m ├── myreshape.m ├── mysetdiff.m ├── mysize.m ├── mysubset.m ├── mysymsetdiff.m ├── myunion.m ├── nchoose2.m ├── ncols.m ├── nonmaxsup.m ├── normalise.m ├── normaliseC.c ├── normaliseC.dll ├── normalize.m ├── nrows.m ├── num2strcell.m ├── optimalMatching.m ├── optimalMatchingTest.m ├── partitionData.m ├── partition_matrix_vec.m ├── pca_kpm.m ├── pca_netlab.m ├── pick.m ├── plotBox.m ├── plotColors.m ├── plotROC.m ├── plotROCkpm.m ├── plot_axis_thru_origin.m ├── plot_ellipse.m ├── plot_matrix.m ├── plot_polygon.m ├── plotcov2.m ├── plotcov2New.m ├── plotcov3.m ├── plotgauss1d.m ├── plotgauss2d.m ├── plotgauss2d_old.m ├── polygon_area.m ├── polygon_centroid.m ├── polygon_intersect.m ├── previewfig.m ├── process_options.m ├── rand_psd.m ├── rectintC.m ├── rectintLoopC.c ├── rectintLoopC.dll ├── rectintSparse.m ├── rectintSparseC.m ├── rectintSparseLoopC.c ├── rectintSparseLoopC.dll ├── repmatC.c ├── repmatC.dll ├── rgb2grayKPM.m ├── rnd_partition.m ├── rotate_xlabel.m ├── safeStr.m ├── sampleUniformInts.m ├── sample_discrete.m ├── set_xtick_label.m ├── set_xtick_label_demo.m ├── setdiag.m ├── softeye.m ├── sort_evec.m ├── splitLongSeqIntoManyShort.m ├── sprintf_intvec.m ├── sqdist.m ├── str_split.m ├── strmatch_multi.m ├── strmatch_substr.m ├── subplot2.m ├── subplot3.m ├── subsets.m ├── subsets1.m ├── subsetsFixedSize.m ├── subv2ind.m ├── subv2indKPM.c ├── subv2indKPM.m ├── subv2indMinka.m ├── subv2indTest.m ├── sumv.m ├── suptitle.m ├── unaryEncoding.m ├── wrap.m ├── xticklabel_rotate90.m ├── zipload.m └── zipsave.m ├── Kalman ├── AR_to_SS.m ├── CVS │ ├── Entries │ ├── Repository │ └── Root ├── README.txt ├── SS_to_AR.m ├── convert_to_lagged_form.m ├── ensure_AR.m ├── eval_AR_perf.m ├── kalman_filter.m ├── kalman_forward_backward.m ├── kalman_smoother.m ├── kalman_update.m ├── learn_AR.m ├── learn_AR_diagonal.m ├── learn_kalman.m ├── learning_demo.m ├── sample_lds.m ├── smooth_update.m ├── testKalman.m └── tracking_demo.m ├── SLP ├── SLP_doc_1.5.pdf ├── contents.m ├── copyright.txt ├── examples │ ├── UCI_DataSets │ │ ├── SPECT.names │ │ ├── SPECTD.m │ │ ├── abalone │ │ ├── abalone.names │ │ ├── abaloneD.m │ │ ├── australian │ │ ├── australian.doc │ │ ├── australianD.m │ │ ├── car │ │ ├── car.names │ │ ├── carD.m │ │ ├── contracep.names │ │ ├── contrasep │ │ ├── contrasepD.m │ │ ├── diabetes │ │ ├── diabetes.names │ │ ├── diabetesD.m │ │ ├── german │ │ ├── german.doc │ │ ├── germanD.m │ │ ├── heart │ │ ├── heart.doc │ │ ├── heart2 │ │ ├── heart2.mat │ │ ├── heartD.m │ │ ├── hepatitis.dat │ │ ├── hepatitisL.m │ │ ├── horse.dat │ │ ├── horseD │ │ ├── horseL.m │ │ ├── horseTD │ │ ├── horse_test.dat │ │ ├── house.dat │ │ ├── houseL.m │ │ ├── letterD.data │ │ ├── letterD.m │ │ ├── letterD.names │ │ ├── letter_A │ │ ├── letter_T │ │ ├── monks.names │ │ ├── monks1.dat │ │ ├── monks1D.m │ │ ├── monks2.dat │ │ ├── monks2D.m │ │ ├── monks3.dat │ │ ├── monks3D.m │ │ ├── monks_A1 │ │ ├── monks_A2 │ │ ├── monks_A3 │ │ ├── monks_T │ │ ├── monks_test.dat │ │ ├── mushrooms.dat │ │ ├── mushroomsL.m │ │ ├── nursery │ │ ├── nursery.names │ │ ├── nurseryD.m │ │ ├── penD.m │ │ ├── pen_A │ │ ├── pen_T │ │ ├── pendigits.names │ │ ├── segment │ │ ├── segment.doc │ │ ├── segmentD.m │ │ ├── soybean.dat │ │ ├── soybeanL.m │ │ ├── soybean_test.dat │ │ ├── spect_a │ │ ├── spect_t │ │ ├── tae │ │ ├── tae.names │ │ ├── taeD.m │ │ ├── thyroidL.m │ │ ├── thyroid_app.mat │ │ ├── thyroid_test.mat │ │ ├── wine │ │ ├── wine.names │ │ ├── wineD.m │ │ ├── zoo │ │ ├── zoo.names │ │ └── zooD.m │ ├── test_MWSTEM.m │ ├── test_bnpc.m │ ├── test_bnpc2.m │ ├── test_cache.m │ ├── test_chisquare.m │ ├── test_cpdag.m │ ├── test_data_generation.m │ ├── test_gener.m │ ├── test_ges.m │ ├── test_ges_em.m │ ├── test_gs2.m │ ├── test_kldiv.m │ ├── test_knn.m │ ├── test_mwst.m │ ├── test_netica_export.m │ ├── test_pc.m │ ├── test_sem1.m │ └── test_sem2.m ├── learning │ ├── @jtree_inf_engine2 │ │ ├── cliques_from_engine.m │ │ ├── clq_containing_nodes.m │ │ ├── collect_evidence.m │ │ ├── disp.m │ │ ├── display.m │ │ ├── distribute_evidence.m │ │ ├── enter_evidence.m │ │ ├── enter_soft_evidence.m │ │ ├── find_max_config.m │ │ ├── find_mpe.m │ │ ├── get.m │ │ ├── init_pot.m │ │ ├── jtree_inf_engine2.m │ │ ├── marginal_family.m │ │ ├── marginal_nodes.m │ │ ├── set.m │ │ └── set_fields.m │ ├── learn_struct_EM.m │ ├── learn_struct_bnpc.m │ ├── learn_struct_ges.m │ ├── learn_struct_ges_EM.m │ ├── learn_struct_gs.m │ ├── learn_struct_gs2.m │ ├── learn_struct_hc.m │ ├── learn_struct_mcmc.m │ ├── learn_struct_mwst.m │ ├── learn_struct_mwst_EM.m │ ├── learn_struct_pdag_pc_mod.m │ ├── learn_struct_tan.m │ ├── learn_struct_tan_EM.m │ └── mk_naive_struct.m ├── license.gpl ├── misc │ ├── CPT_from_bnet.m │ ├── Markov_equivalent_dags.m │ ├── bnt_to_mat.m │ ├── chi2_table.m │ ├── classification_evaluation.m │ ├── complete_pattern.m │ ├── compute_bnet_nparams.m │ ├── confiance.m │ ├── cpdag_to_dag.m │ ├── cpdag_to_dag2.m │ ├── dag_to_cpdag.m │ ├── dag_to_cpdag1.m │ ├── discretization.m │ ├── editing_dist.m │ ├── export_cases.m │ ├── export_dnet.m │ ├── exportfig.m │ ├── find_nodes_in_undirected_component.m │ ├── foptions.m │ ├── gener_MAR_net.m │ ├── gener_MCAR_net.m │ ├── gener_NMAR_data.m │ ├── gener_data_from_bnet_miss.m │ ├── gener_discrete_dist.m │ ├── gener_empty_cache.m │ ├── hist_ic.m │ ├── histc_ic.m │ ├── inference.m │ ├── isdag.m │ ├── ismemberclique.m │ ├── knn.m │ ├── mat_to_bnt.m │ ├── mk_nbrs_of_dag_topo.m │ ├── mk_nbrs_of_pdag_add.m │ ├── mk_nbrs_of_pdag_del.m │ ├── multiply_one_marginal.c │ ├── multiply_one_marginal.dll │ ├── multiply_one_marginal.mexa64 │ ├── multiply_one_marginal.mexglx │ ├── pdag_to_all_dags.m │ ├── pdag_to_dag.m │ ├── pdag_unsigned_to_signed.m │ └── subsets1.m └── scoring │ ├── calculate_mutual_information_array.m │ ├── cond_indep_chisquare.m │ ├── cond_mutual_info_score.m │ ├── kl_divergence.m │ ├── kl_divergence2.m │ ├── mutual_info_score.m │ ├── score_add_to_cache.m │ ├── score_dag.c │ ├── learn_struct_gs_dtab.m │ ├── learn_struct_gs_dtab_INFO.txt │ ├── learn_struct_gs_dtabx.m │ ├── learn_struct_gs_dtabxx.m │ ├── score_dag_x.c │ ├── score_family_x.c │ ├── score_x.c │ └── score_x.h │ ├── score_dags.m │ ├── score_family.m │ ├── score_find_in_cache.m │ └── score_init_cache.m ├── Utils ├── classified │ ├── classified_experiment │ │ └── iris_classified_demo.m │ ├── computer_avg_classified.m │ └── learn_struct_and_classified.m ├── database │ ├── get_data_and_mdlp_demo.m │ ├── get_data_from_mysql.m │ ├── get_data_type_map.m │ ├── get_default_mysql_data.m │ ├── get_default_mysql_data_demo.m │ └── iris.sql ├── discretization │ ├── convert_to_num_matrix.m │ ├── get_data_and_use_mdl_demo.m │ ├── mdl_algorithm.m │ └── single_mdl_algorithm.m ├── struct │ ├── different_to_standard.m │ └── node_dependent.m └── utils │ ├── compare_dag.m │ ├── get_bnet.m │ ├── get_node_sizes.m │ └── print_dag.m ├── bntRoot.m ├── docs ├── ChangeLog.Sourceforge.txt ├── Eqns │ └── lin_reg_eqn.gif ├── Figures │ ├── CPTgrass.gif │ ├── HMEforMatlab.jpg │ ├── ar1.fig │ ├── ar1.gif │ ├── batnet.fig │ ├── batnet.gif │ ├── batnet_numbered.fig │ ├── bic.png │ ├── cg1.fig │ ├── cg1.gif │ ├── chmm5.T5.fig │ ├── chmm5.fig │ ├── chmm5.gif │ ├── chmm5.influence.fig │ ├── chmm5.jpg │ ├── chmm5.named.fig │ ├── chmm5.small.fig │ ├── chmm5_circle.fig │ ├── chmm5_nobold.fig │ ├── fa.eps │ ├── fa.fig │ ├── fa.gif │ ├── fa_caption.fig │ ├── fa_discrete.fig │ ├── fa_discrete.gif │ ├── fa_discrete_single.fig │ ├── fa_regular.fig │ ├── fa_regular.gif │ ├── fa_scalar.eps │ ├── fa_scalar.fig │ ├── fa_scalar.gif │ ├── fa_scalar_caption.fig │ ├── factorial_hmm3.fig │ ├── filter.eps │ ├── filter.fig │ ├── filter.gif │ ├── filter.tex │ ├── gaussplot.png │ ├── hme.fig │ ├── hme.gif │ ├── hme_dec_boundary.gif │ ├── hme_dec_boundary.png │ ├── hmm3.fig │ ├── hmm3.gif │ ├── hmm3letter.fig │ ├── hmm3letter.gif │ ├── hmm3letter.jpg │ ├── hmm4.fig │ ├── hmm4.gif │ ├── hmm4_params.fig │ ├── hmm4_params.gif │ ├── hmm4_paramsX.fig │ ├── hmm4_square.fig │ ├── hmm_ar.fig │ ├── hmm_ar.gif │ ├── hmm_coupled.fig │ ├── hmm_coupled.gif │ ├── hmm_factorial.fig │ ├── hmm_factorial.gif │ ├── hmm_gauss.fig │ ├── hmm_gauss.gif │ ├── hmm_io.fig │ ├── hmm_io.gif │ ├── hmm_mixgauss.fig │ ├── hmm_mixgauss.gif │ ├── hmm_zoo.fig │ ├── hmm_zoo.gif │ ├── hmm_zoo_names.fig │ ├── hmm_zoo_small.fig │ ├── ifa.eps │ ├── ifa.fig │ ├── ifa.gif │ ├── kf.fig │ ├── kf.gif │ ├── kf_input.fig │ ├── kf_input.gif │ ├── kf_notime.fig │ ├── kf_obs_track.fig │ ├── kf_scalar_track.fig │ ├── kfhead.jpg │ ├── mathbymatlab.gif │ ├── mcmc_accept.jpg │ ├── mcmc_post.jpg │ ├── mfa.eps │ ├── mfa.fig │ ├── mfa.gif │ ├── mixexp.fig │ ├── mixexp.gif │ ├── mixexp_after.gif │ ├── mixexp_before.gif │ ├── mixexp_data.gif │ ├── model_select.png │ ├── qmr.fig │ ├── qmr.gif │ ├── qmr.jpg │ ├── qmr.rnd.jpg │ ├── rainer_dbn.jpg │ ├── rainer_tied.fig │ ├── rainer_tied.gif │ ├── sar.fig │ ├── sar.gif │ ├── skf.fig │ ├── skf.gif │ ├── skf3.fig │ ├── skf3_nobold.fig │ ├── skf3_nosolid.fig │ ├── skf3_polytree.fig │ ├── sprinkler.fig │ ├── sprinkler.gif │ ├── sprinkler.jpg │ ├── sprinkler.noparams.fig │ ├── sprinkler_bar.gif │ ├── sprinkler_bar.jpg │ ├── sprinkler_bar.png │ ├── water3.cts.fig │ ├── water3.fig │ ├── water3.gif │ ├── water3_75.gif │ ├── water3_circle.fig │ ├── water3_named_nodes.fig │ └── water3_nolabels.fig ├── GR03~1.PDF ├── Talks │ ├── BNT_mathworks.ppt │ ├── gR03.ppt │ └── stair_BNT_mathworks.ppt ├── adj2pajek2.m ├── bnsoftOld.html ├── bnt.html ├── bnt_download.html ├── bnt_pre_sf.html ├── cellarray.html ├── changelog.html ├── dbn_hmm_demo.m ├── gr03.pdf ├── graph_to_dot.m ├── graphviz.html ├── install.html ├── join.gif ├── license.gpl ├── majorFeatures.html ├── mathbymatlab.gif ├── matlab_comparison.html ├── numDAGsEqn.png ├── numDAGsEqn2.png ├── param_tieing.html ├── supportedModels.html ├── usage.html ├── usage_02nov13.html ├── usage_cropped.html ├── usage_dbn.html ├── usage_dbn_02nov13.html ├── usage_sf.html └── whyNotSourceforge.html ├── foptions.m ├── genpathKPM.m ├── graph ├── CVS │ ├── Entries │ ├── Entries.Log │ ├── Repository │ └── Root ├── Old │ ├── CVS │ │ ├── Entries │ │ ├── Repository │ │ └── Root │ ├── best_first_elim_order.m │ ├── dag_to_jtree.m │ ├── dfs.m │ ├── dsep_test.m │ └── mk_2D_lattice_slow.m ├── README.txt ├── acyclic.m ├── assignEdgeNums.m ├── best_first_elim_order.m ├── check_jtree_property.m ├── check_triangulated.m ├── children.m ├── cliques_to_jtree.m ├── cliques_to_strong_jtree.m ├── connected_graph.m ├── dag_to_essential_graph.m ├── dfs.m ├── dfs_test.m ├── dijkstra.m ├── family.m ├── findroot.m ├── graph_separated.m ├── graph_to_jtree.m ├── min_subtree_con_nodes.m ├── minimum_spanning_tree.m ├── minspan.m ├── mk_2D_lattice.m ├── mk_2D_lattice_slow.m ├── mk_adj_mat.m ├── mk_adjmat_chain.m ├── mk_all_dags.m ├── mk_nbrs_of_dag.m ├── mk_nbrs_of_digraph.m ├── mk_nbrs_of_digraph_broken.m ├── mk_nbrs_of_digraph_not_vectorized.m ├── mk_rnd_dag.m ├── mk_rnd_dag_given_edge_prob.m ├── mk_rooted_tree.m ├── mk_undirected.m ├── moralize.m ├── neighbors.m ├── parents.m ├── pred2path.m ├── reachability_graph.m ├── scc.m ├── strong_elim_order.m ├── test.m ├── test_strong_root.m ├── topological_sort.m ├── trees.txt ├── triangulate.c ├── triangulate.m ├── triangulate_2Dlattice_demo.m └── triangulate_test.m ├── nethelp3.3 ├── CVS │ ├── Entries │ ├── Repository │ └── Root ├── conffig.htm ├── confmat.htm ├── conjgrad.htm ├── consist.htm ├── convertoldnet.htm ├── datread.htm ├── datwrite.htm ├── dem2ddat.htm ├── demard.htm ├── demev1.htm ├── demev2.htm ├── demev3.htm ├── demgauss.htm ├── demglm1.htm ├── demglm2.htm ├── demgmm1.htm ├── demgmm2.htm ├── demgmm3.htm ├── demgmm4.htm ├── demgmm5.htm ├── demgp.htm ├── demgpard.htm ├── demgpot.htm ├── demgtm1.htm ├── demgtm2.htm ├── demhint.htm ├── demhmc1.htm ├── demhmc2.htm ├── demhmc3.htm ├── demkmn1.htm ├── demknn1.htm ├── demmdn1.htm ├── demmet1.htm ├── demmlp1.htm ├── demmlp2.htm ├── demnlab.htm ├── demns1.htm ├── demolgd1.htm ├── demopt1.htm ├── dempot.htm ├── demprgp.htm ├── demprior.htm ├── demrbf1.htm ├── demsom1.htm ├── demtrain.htm ├── dist2.htm ├── eigdec.htm ├── errbayes.htm ├── evidence.htm ├── fevbayes.htm ├── gauss.htm ├── gbayes.htm ├── glm.htm ├── glmderiv.htm ├── glmerr.htm ├── glmevfwd.htm ├── glmfwd.htm ├── glmgrad.htm ├── glmhess.htm ├── glminit.htm ├── glmpak.htm ├── glmtrain.htm ├── glmunpak.htm ├── gmm.htm ├── gmmactiv.htm ├── gmmem.htm ├── gmminit.htm ├── gmmpak.htm ├── gmmpost.htm ├── gmmprob.htm ├── gmmsamp.htm ├── gmmunpak.htm ├── gp.htm ├── gpcovar.htm ├── gpcovarf.htm ├── gpcovarp.htm ├── gperr.htm ├── gpfwd.htm ├── gpgrad.htm ├── gpinit.htm ├── gppak.htm ├── gpunpak.htm ├── gradchek.htm ├── graddesc.htm ├── gsamp.htm ├── gtm.htm ├── gtmem.htm ├── gtmfwd.htm ├── gtminit.htm ├── gtmlmean.htm ├── gtmlmode.htm ├── gtmmag.htm ├── gtmpost.htm ├── gtmprob.htm ├── hbayes.htm ├── hesschek.htm ├── hintmat.htm ├── hinton.htm ├── histp.htm ├── hmc.htm ├── index.htm ├── kmeans.htm ├── knn.htm ├── knnfwd.htm ├── linef.htm ├── linemin.htm ├── maxitmess.htm ├── mdn.htm ├── mdn2gmm.htm ├── mdndist2.htm ├── mdnerr.htm ├── mdnfwd.htm ├── mdngrad.htm ├── mdninit.htm ├── mdnpak.htm ├── mdnpost.htm ├── mdnprob.htm ├── mdnunpak.htm ├── metrop.htm ├── minbrack.htm ├── mlp.htm ├── mlpbkp.htm ├── mlpderiv.htm ├── mlperr.htm ├── mlpevfwd.htm ├── mlpfwd.htm ├── mlpgrad.htm ├── mlphdotv.htm ├── mlphess.htm ├── mlphint.htm ├── mlpinit.htm ├── mlppak.htm ├── mlpprior.htm ├── mlptrain.htm ├── mlpunpak.htm ├── netderiv.htm ├── neterr.htm ├── netevfwd.htm ├── netgrad.htm ├── nethelp3.3.zip ├── nethess.htm ├── netinit.htm ├── netopt.htm ├── netpak.htm ├── netunpak.htm ├── olgd.htm ├── pca.htm ├── plotmat.htm ├── ppca.htm ├── quasinew.htm ├── rbf.htm ├── rbfbkp.htm ├── rbfderiv.htm ├── rbferr.htm ├── rbfevfwd.htm ├── rbffwd.htm ├── rbfgrad.htm ├── rbfhess.htm ├── rbfjacob.htm ├── rbfpak.htm ├── rbfprior.htm ├── rbfsetbf.htm ├── rbfsetfw.htm ├── rbftrain.htm ├── rbfunpak.htm ├── rosegrad.htm ├── rosen.htm ├── scg.htm ├── som.htm ├── somfwd.htm ├── sompak.htm ├── somtrain.htm └── somunpak.htm ├── netlab3.3 ├── CVS │ ├── Entries │ ├── Repository │ └── Root ├── Contents.m ├── LICENSE ├── conffig.m ├── confmat.m ├── conjgrad.m ├── consist.m ├── convertoldnet.m ├── datread.m ├── datwrite.m ├── dem2ddat.m ├── demard.m ├── demev1.m ├── demev2.m ├── demev3.m ├── demgauss.m ├── demglm1.m ├── demglm2.m ├── demgmm1.m ├── demgmm2.m ├── demgmm3.m ├── demgmm4.m ├── demgmm5.m ├── demgp.m ├── demgpard.m ├── demgpot.m ├── demgtm1.m ├── demgtm2.m ├── demhint.m ├── demhmc1.m ├── demhmc2.m ├── demhmc3.m ├── demkmn1.m ├── demknn1.m ├── demmdn1.m ├── demmet1.m ├── demmlp1.m ├── demmlp2.m ├── demnlab.m ├── demns1.m ├── demolgd1.m ├── demopt1.m ├── dempot.m ├── demprgp.m ├── demprior.m ├── demrbf1.m ├── demsom1.m ├── demtrain.m ├── dist2.m ├── eigdec.m ├── errbayes.m ├── evidence.m ├── fevbayes.m ├── gauss.m ├── gbayes.m ├── glm.m ├── glmderiv.m ├── glmerr.m ├── glmevfwd.m ├── glmfwd.m ├── glmgrad.m ├── glmhess.m ├── glminit.m ├── glmpak.m ├── glmtrain.m ├── glmunpak.m ├── gmm.m ├── gmmactiv.m ├── gmmem.m ├── gmminit.m ├── gmmpak.m ├── gmmpost.m ├── gmmprob.m ├── gmmsamp.m ├── gmmunpak.m ├── gp.m ├── gpcovar.m ├── gpcovarf.m ├── gpcovarp.m ├── gperr.m ├── gpfwd.m ├── gpgrad.m ├── gpinit.m ├── gppak.m ├── gpunpak.m ├── gradchek.m ├── graddesc.m ├── gsamp.m ├── gtm.m ├── gtmem.m ├── gtmfwd.m ├── gtminit.m ├── gtmlmean.m ├── gtmlmode.m ├── gtmmag.m ├── gtmpost.m ├── gtmprob.m ├── hbayes.m ├── hesschek.m ├── hintmat.m ├── hinton.m ├── histp.m ├── hmc.m ├── kmeansNetlab.m ├── knn.m ├── knnfwd.m ├── linef.m ├── linemin.m ├── maxitmess.m ├── mdn.m ├── mdn2gmm.m ├── mdndist2.m ├── mdnerr.m ├── mdnfwd.m ├── mdngrad.m ├── mdninit.m ├── mdnnet.mat ├── mdnpak.m ├── mdnpost.m ├── mdnprob.m ├── mdnunpak.m ├── metrop.m ├── minbrack.m ├── mlp.m ├── mlpbkp.m ├── mlpderiv.m ├── mlperr.m ├── mlpevfwd.m ├── mlpfwd.m ├── mlpgrad.m ├── mlphdotv.m ├── mlphess.m ├── mlphint.m ├── mlpinit.m ├── mlppak.m ├── mlpprior.m ├── mlptrain.m ├── mlpunpak.m ├── netderiv.m ├── neterr.m ├── netevfwd.m ├── netgrad.m ├── nethess.m ├── netinit.m ├── netlab3.3.zip ├── netlogo.mat ├── netopt.m ├── netpak.m ├── netunpak.m ├── oilTrn.dat ├── oilTst.dat ├── olgd.m ├── pca.m ├── plotmat.m ├── ppca.m ├── quasinew.m ├── rbf.m ├── rbfbkp.m ├── rbfderiv.m ├── rbferr.m ├── rbfevfwd.m ├── rbffwd.m ├── rbfgrad.m ├── rbfhess.m ├── rbfjacob.m ├── rbfpak.m ├── rbfprior.m ├── rbfsetbf.m ├── rbfsetfw.m ├── rbftrain.m ├── rbfunpak.m ├── rosegrad.m ├── rosen.m ├── scg.m ├── som.m ├── somfwd.m ├── sompak.m ├── somtrain.m ├── somunpak.m └── xor.dat ├── netlabKPM ├── CVS │ ├── Entries │ ├── Repository │ └── Root ├── README.txt ├── demgmm1_movie.m ├── evidence_weighted.m ├── glmerr_weighted.m ├── glmgrad_weighted.m ├── glmhess_weighted.m 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