API for djhshih/orient-bias-filter
Orientation Bias Filter
| Global functions | |
|---|---|
| anti_phred | Source code |
| centered_grid | Source code |
| deviance_theta | Source code |
| dlp_xi_given_hparams_dalpha | Source code |
| dlp_xi_given_hparams_dbeta | Source code |
| dlp_xij_given_hparams_dalpha | Source code |
| dlp_xij_given_hparams_dbeta | Source code |
| estimate_initial_theta | Source code |
| estimate_phi | Source code |
| estimate_theta | Source code |
| estimate_theta_phi | Source code |
| evaluate_grid | Source code |
| idx_to_sub | Source code |
| integrate_over_unit | Source code |
| log_midpoint_integration | Source code |
| log_sum_exp | Source code |
| log_trapezoid_integration | Source code |
| logistic | Source code |
| logit | Source code |
| lp_alt_base_given_params | Source code |
| lp_bases_given_params | Source code |
| lp_other_base_given_params | Source code |
| lp_ref_base_given_params | Source code |
| lp_xc_given_hparams | Source code |
| lp_xc_given_hparams_simplified | Source code |
| lp_xcj_given_hparams | Source code |
| lp_xcj_given_hparams_simplified | Source code |
| lp_xi_given_hparams | Source code |
| lp_xij_given_hparams | Source code |
| midpoint_integration | Source code |
| midpoint_integration_logit_x | Source code |
| orient_bias_adjusted_variant_test | Source code |
| orient_bias_adjusted_variant_test_with_known_phi | Source code |
| orient_bias_adjusted_variant_test_with_variable_phi | Source code |
| orient_bias_identify_bayes_model_large_approx | Source code |
| orient_bias_identify_bayes_model_log_midpoint | Source code |
| orient_bias_identify_bayes_model_midpoint | Source code |
| orient_bias_identify_bayes_model_midpoint_cgrid | Source code |
| orient_bias_identify_bayes_model_midpoint_logit_x | Source code |
| orient_bias_identify_bayes_model_standard | Source code |
| p_alt_base_given_params | Source code |
| p_other_base_given_params | Source code |
| p_ref_base_given_params | Source code |
| phred | Source code |
| print.btest | Source code |
| quant_estimate_global_phi | Source code |
| quant_estimate_global_theta | Source code |
| quant_estimate_phi_hparams | Source code |
| quant_estimate_phi_hparams_cd | Source code |
| quant_estimate_phi_hparams_ravine | Source code |
| quant_estimate_phi_hparams_simplified | Source code |
| quant_estimate_theta_hparams_multiroot | Source code |
| quant_estimate_theta_hparams_optim | Source code |
| quant_estimate_theta_hparams_optim_root | Source code |
| quant_estimate_theta_hparams_ravine | Source code |
| quant_estimate_theta_hparams_uniroots | Source code |
| quantify_global_damage | Source code |
| quantify_variable_damage | Source code |
| simulate_orient_bias_read_counts | Source code |
| simulate_orient_bias_read_counts_hier | Source code |
| simulate_orient_bias_read_stats | Source code |
| simulate_orient_bias_read_stats_hier | Source code |
| standard_integration | Source code |
| trapezoid_integration | Source code |
