| .rlang_as_friendly_type |
Source code
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| .rlang_check_is_string |
Source code
|
| .rlang_stop_unexpected_typeof |
Source code
|
| .stop_not_number |
Source code
|
| alpha_parameter_to_xml |
Man page
Source code
|
| are_clock_models |
Man page
Source code
|
| are_equal_mcmcs |
Man page
Source code
|
| are_equal_screenlogs |
Man page
Source code
|
| are_equal_tracelogs |
Man page
Source code
|
| are_equal_treelogs |
Man page
Source code
|
| are_equal_xml_files |
Man page
Source code
|
| are_equal_xml_lines |
Man page
Source code
|
| are_equivalent_xml_files |
Man page
Source code
|
| are_equivalent_xml_lines |
Man page
Source code
|
| are_equivalent_xml_lines_all |
Man page
Source code
|
| are_equivalent_xml_lines_loggers |
Man page
Source code
|
| are_equivalent_xml_lines_operators |
Man page
Source code
|
| are_equivalent_xml_lines_section |
Man page
Source code
|
| are_fasta_filenames |
Man page
Source code
|
| are_ids |
Man page
Source code
|
| are_init_clock_models |
Man page
Source code
|
| are_init_mrca_priors |
Man page
Source code
|
| are_init_site_models |
Man page
Source code
|
| are_init_tree_priors |
Man page
Source code
|
| are_mrca_align_ids_in_fasta |
Man page
Source code
|
| are_mrca_priors |
Man page
Source code
|
| are_mrca_taxon_names_in_fasta |
Man page
Source code
|
| are_rln_clock_models |
Man page
Source code
|
| are_site_models |
Man page
Source code
|
| are_tree_priors |
Man page
Source code
|
| b_pop_sizes_param_to_xml |
Man page
Source code
|
| b_pop_sizes_parameter_to_xml |
Man page
Source code
|
| bd_tree_prior_to_xml_prior_distr |
Man page
Source code
|
| beautier |
Man page
|
| beautier-package |
Man page
|
| beta_parameter_to_xml |
Man page
Source code
|
| cbs_tree_prior_to_xml_prior_distr |
Man page
Source code
|
| ccp_tree_prior_to_xml_prior_distr |
Man page
Source code
|
| ccp_tree_prior_to_xml_state |
Man page
Source code
|
| cep_tree_prior_to_xml_prior_distr |
Man page
Source code
|
| check_alignment_id |
Man page
Source code
|
| check_arg |
Source code
|
| check_beauti_options |
Man page
Source code
|
| check_bool |
Source code
|
| check_call |
Source code
|
| check_character |
Source code
|
| check_clock_model |
Man page
Source code
|
| check_clock_models |
Man page
Source code
|
| check_closure |
Source code
|
| check_data_frame |
Source code
|
| check_empty_beautier_folder |
Man page
Source code
|
| check_environment |
Source code
|
| check_false |
Source code
|
| check_file_and_model_agree |
Man page
Source code
|
| check_file_exists |
Man page
Source code
|
| check_filename |
Man page
Source code
|
| check_formula |
Source code
|
| check_function |
Source code
|
| check_gamma_site_model |
Man page
Source code
|
| check_gamma_site_model_names |
Man page
Source code
|
| check_gtr_site_model |
Man page
Source code
|
| check_gtr_site_model_names |
Man page
Source code
|
| check_inference_model |
Man page
Source code
|
| check_inference_models |
Man page
Source code
|
| check_is_monophyletic |
Man page
Source code
|
| check_log_mode |
Man page
Source code
|
| check_log_sort |
Man page
Source code
|
| check_logical |
Source code
|
| check_mcmc |
Man page
Source code
|
| check_mcmc_list_element_names |
Man page
Source code
|
| check_mcmc_nested_sampling |
Man page
|
| check_mcmc_values |
Man page
Source code
|
| check_mrca_prior |
Man page
Source code
|
| check_mrca_prior_name |
Man page
Source code
|
| check_mrca_prior_names |
Man page
Source code
|
| check_mrca_prior_taxa_names |
Man page
Source code
|
| check_name |
Source code
|
| check_nested_sampling_mcmc |
Man page
Source code
|
| check_ns_mcmc |
Man page
|
| check_number_decimal |
Source code
|
| check_number_whole |
Source code
|
| check_param |
Man page
Source code
|
| check_param_names |
Man page
Source code
|
| check_param_types |
Man page
Source code
|
| check_phylogeny |
Man page
Source code
|
| check_rename_fun |
Man page
Source code
|
| check_rln_clock_model |
Man page
Source code
|
| check_screenlog |
Man page
Source code
|
| check_screenlog_names |
Man page
Source code
|
| check_screenlog_values |
Man page
Source code
|
| check_site_model |
Man page
Source code
|
| check_site_model_names |
Man page
Source code
|
| check_site_model_types |
Man page
Source code
|
| check_site_models |
Man page
Source code
|
| check_store_every |
Man page
Source code
|
| check_strict_clock_model |
Man page
Source code
|
| check_string |
Source code
|
| check_symbol |
Source code
|
| check_tn93_site_model |
Man page
Source code
|
| check_tn93_site_model_names |
Man page
Source code
|
| check_tracelog |
Man page
Source code
|
| check_tracelog_names |
Man page
Source code
|
| check_tracelog_values |
Man page
Source code
|
| check_tree_prior |
Man page
Source code
|
| check_tree_priors |
Man page
Source code
|
| check_treelog |
Man page
Source code
|
| check_treelog_names |
Man page
Source code
|
| check_treelog_values |
Man page
Source code
|
| check_true |
Source code
|
| clock_model_to_xml_operators |
Man page
Source code
|
| clock_model_to_xml_prior_distr |
Man page
Source code
|
| clock_model_to_xml_state |
Man page
Source code
|
| clock_model_to_xml_tracelog |
Man page
Source code
|
| clock_model_to_xml_treelogger |
Man page
Source code
|
| clock_rate_param_to_xml |
Man page
Source code
|
| compare_lines |
Man page
Source code
|
| count_trailing_spaces |
Man page
Source code
|
| create_alpha_param |
Man page
|
| create_b_pop_sizes_param |
Man page
|
| create_bd_tree_prior |
Man page
|
| create_beast2_beast_xml |
Man page
Source code
|
| create_beast2_input |
Man page
Source code
|
| create_beast2_input_beast |
Man page
Source code
|
| create_beast2_input_data |
Man page
Source code
|
| create_beast2_input_data_sequences |
Man page
Source code
|
| create_beast2_input_distr |
Man page
Source code
|
| create_beast2_input_distr_lh |
Man page
Source code
|
| create_beast2_input_distr_prior |
Man page
Source code
|
| create_beast2_input_file |
Man page
Source code
|
| create_beast2_input_file_from_model |
Man page
Source code
|
| create_beast2_input_from_model |
Man page
Source code
|
| create_beast2_input_init |
Man page
Source code
|
| create_beast2_input_map |
Man page
Source code
|
| create_beast2_input_operators |
Man page
Source code
|
| create_beast2_input_run |
Man page
Source code
|
| create_beast2_input_state |
Man page
Source code
|
| create_beauti_options |
Man page
Source code
|
| create_beauti_options_v2_4 |
Man page
Source code
|
| create_beauti_options_v2_6 |
Man page
Source code
|
| create_beautier_tempfolder |
Man page
Source code
|
| create_beta_distr |
Man page
|
| create_beta_param |
Man page
|
| create_branch_rate_model_xml |
Man page
Source code
|
| create_cbs_tree_prior |
Man page
|
| create_ccp_tree_prior |
Man page
|
| create_cep_tree_prior |
Man page
|
| create_clock_model |
Man page
Source code
|
| create_clock_model_from_name |
Man page
Source code
|
| create_clock_model_rln |
Man page
Source code
|
| create_clock_model_strict |
Man page
Source code
|
| create_clock_models |
Man page
Source code
|
| create_clock_models_from_names |
Man page
Source code
|
| create_clock_rate_param |
Man page
|
| create_clock_rate_state_node_parameter_xml |
Man page
Source code
|
| create_data_xml |
Man page
Source code
|
| create_distr |
Man page
Source code
|
| create_distr_beta |
Man page
Source code
|
| create_distr_exp |
Man page
Source code
|
| create_distr_gamma |
Man page
Source code
|
| create_distr_inv_gamma |
Man page
Source code
|
| create_distr_laplace |
Man page
Source code
|
| create_distr_log_normal |
Man page
Source code
|
| create_distr_normal |
Man page
Source code
|
| create_distr_one_div_x |
Man page
Source code
|
| create_distr_poisson |
Man page
Source code
|
| create_distr_uniform |
Man page
Source code
|
| create_exp_distr |
Man page
|
| create_freq_param |
Man page
|
| create_gamma_distr |
Man page
|
| create_gamma_site_model |
Man page
Source code
|
| create_gtr_site_model |
Man page
|
| create_gtr_subst_model_xml |
Man page
Source code
|
| create_hky_site_model |
Man page
|
| create_hky_subst_model_xml |
Man page
Source code
|
| create_inference_model |
Man page
Source code
|
| create_inv_gamma_distr |
Man page
|
| create_jc69_site_model |
Man page
|
| create_jc69_subst_model_xml |
Man page
Source code
|
| create_kappa_1_param |
Man page
|
| create_kappa_2_param |
Man page
|
| create_kappa_param |
Man page
|
| create_lambda_param |
Man page
|
| create_laplace_distr |
Man page
|
| create_log_normal_distr |
Man page
|
| create_loggers_xml |
Man page
Source code
|
| create_m_param |
Man page
|
| create_mcmc |
Man page
Source code
|
| create_mcmc_nested_sampling |
Man page
Source code
|
| create_mean_param |
Man page
|
| create_mrca_prior |
Man page
Source code
|
| create_mu_param |
Man page
|
| create_normal_distr |
Man page
|
| create_ns_inference_model |
Man page
Source code
|
| create_ns_mcmc |
Man page
|
| create_one_div_x_distr |
Man page
|
| create_param |
Man page
Source code
|
| create_param_alpha |
Man page
Source code
|
| create_param_b_pop_sizes |
Man page
Source code
|
| create_param_beta |
Man page
Source code
|
| create_param_clock_rate |
Man page
Source code
|
| create_param_freq |
Man page
Source code
|
| create_param_kappa |
Man page
Source code
|
| create_param_kappa_1 |
Man page
Source code
|
| create_param_kappa_2 |
Man page
Source code
|
| create_param_lambda |
Man page
Source code
|
| create_param_m |
Man page
Source code
|
| create_param_mean |
Man page
Source code
|
| create_param_mu |
Man page
Source code
|
| create_param_rate_ac |
Man page
Source code
|
| create_param_rate_ag |
Man page
Source code
|
| create_param_rate_at |
Man page
Source code
|
| create_param_rate_cg |
Man page
Source code
|
| create_param_rate_ct |
Man page
Source code
|
| create_param_rate_gt |
Man page
Source code
|
| create_param_s |
Man page
Source code
|
| create_param_scale |
Man page
Source code
|
| create_param_sigma |
Man page
Source code
|
| create_poisson_distr |
Man page
|
| create_rate_ac_param |
Man page
|
| create_rate_ag_param |
Man page
|
| create_rate_at_param |
Man page
|
| create_rate_categories_state_node_xml |
Man page
Source code
|
| create_rate_cg_param |
Man page
|
| create_rate_ct_param |
Man page
|
| create_rate_gt_param |
Man page
|
| create_rln_clock_branch_rate_model_xml |
Man page
Source code
|
| create_rln_clock_model |
Man page
|
| create_s_param |
Man page
|
| create_scale_param |
Man page
|
| create_screenlog |
Man page
Source code
|
| create_screenlog_xml |
Man page
Source code
|
| create_sigma_param |
Man page
|
| create_site_model |
Man page
Source code
|
| create_site_model_from_name |
Man page
Source code
|
| create_site_model_gtr |
Man page
Source code
|
| create_site_model_hky |
Man page
Source code
|
| create_site_model_jc69 |
Man page
Source code
|
| create_site_model_parameters_xml |
Man page
Source code
|
| create_site_model_tn93 |
Man page
Source code
|
| create_site_model_xml |
Man page
Source code
|
| create_site_models |
Man page
Source code
|
| create_site_models_from_names |
Man page
Source code
|
| create_strict_clock_branch_rate_model_xml |
Man page
Source code
|
| create_strict_clock_model |
Man page
|
| create_strict_clock_rate_scaler_operator_xml |
Man page
Source code
|
| create_subst_model_xml |
Man page
Source code
|
| create_temp_screenlog_filename |
Man page
Source code
|
| create_temp_tracelog_filename |
Man page
Source code
|
| create_temp_treelog_filename |
Man page
Source code
|
| create_test_inference_model |
Man page
Source code
|
| create_test_mcmc |
Man page
Source code
|
| create_test_ns_inference_model |
Man page
Source code
|
| create_test_ns_mcmc |
Man page
Source code
|
| create_test_screenlog |
Man page
Source code
|
| create_test_tracelog |
Man page
Source code
|
| create_test_treelog |
Man page
Source code
|
| create_tn93_site_model |
Man page
|
| create_tn93_subst_model_xml |
Man page
Source code
|
| create_tracelog |
Man page
Source code
|
| create_tracelog_xml |
Man page
Source code
|
| create_trait_set_string |
Man page
Source code
|
| create_tree_likelihood_distr_xml |
Man page
Source code
|
| create_tree_prior |
Man page
Source code
|
| create_tree_prior_bd |
Man page
Source code
|
| create_tree_prior_cbs |
Man page
Source code
|
| create_tree_prior_ccp |
Man page
Source code
|
| create_tree_prior_cep |
Man page
Source code
|
| create_tree_prior_yule |
Man page
Source code
|
| create_tree_priors |
Man page
Source code
|
| create_treelog |
Man page
Source code
|
| create_treelog_xml |
Man page
Source code
|
| create_ucld_mean_state_node_param_xml |
Man page
Source code
|
| create_ucld_stdev_state_node_param_xml |
Man page
Source code
|
| create_uniform_distr |
Man page
|
| create_xml_declaration |
Man page
Source code
|
| create_yule_tree_prior |
Man page
|
| default_parameters_doc |
Man page
Source code
|
| default_params_doc |
Man page
Source code
|
| distr_to_xml |
Man page
Source code
|
| distr_to_xml_beta |
Man page
Source code
|
| distr_to_xml_exp |
Man page
Source code
|
| distr_to_xml_inv_gamma |
Man page
Source code
|
| distr_to_xml_laplace |
Man page
Source code
|
| distr_to_xml_log_normal |
Man page
Source code
|
| distr_to_xml_normal |
Man page
Source code
|
| distr_to_xml_one_div_x |
Man page
Source code
|
| distr_to_xml_poisson |
Man page
Source code
|
| distr_to_xml_uniform |
Man page
Source code
|
| extract_xml_loggers_from_lines |
Man page
Source code
|
| extract_xml_operators_from_lines |
Man page
Source code
|
| extract_xml_section_from_lines |
Man page
Source code
|
| fasta_file_to_sequences |
Man page
Source code
|
| find_clock_model |
Man page
Source code
|
| find_first_regex_line |
Man page
Source code
|
| find_first_xml_opening_tag_line |
Man page
Source code
|
| find_last_regex_line |
Man page
Source code
|
| find_last_xml_closing_tag_line |
Man page
Source code
|
| freq_equilibrium_to_xml |
Man page
Source code
|
| freq_param_to_xml |
Man page
Source code
|
| gamma_distr_to_xml |
Man page
Source code
|
| gamma_site_model_to_xml_prior_distr |
Man page
Source code
|
| gamma_site_model_to_xml_state |
Man page
Source code
|
| gamma_site_models_to_xml_prior_distr |
Man page
Source code
|
| get_alignment_id |
Man page
Source code
|
| get_alignment_ids |
Man page
Source code
|
| get_alignment_ids_from_fasta_filenames |
Man page
Source code
|
| get_beautier_folder |
Man page
Source code
|
| get_beautier_path |
Man page
Source code
|
| get_beautier_paths |
Man page
Source code
|
| get_beautier_tempfilename |
Man page
Source code
|
| get_clock_model_name |
Man page
Source code
|
| get_clock_model_names |
Man page
Source code
|
| get_clock_models_ids |
Man page
Source code
|
| get_crown_age |
Man page
Source code
|
| get_default_beast_namespace |
Man page
Source code
|
| get_default_beast_namespace_v2_4 |
Man page
Source code
|
| get_default_beast_namespace_v2_6 |
Man page
Source code
|
| get_distr_n_params |
Man page
Source code
|
| get_distr_names |
Man page
Source code
|
| get_fasta_filename |
Man page
Source code
|
| get_file_base_sans_ext |
Man page
Source code
|
| get_freq_equilibrium_names |
Man page
Source code
|
| get_gamma_site_model_n_distrs |
Man page
Source code
|
| get_gamma_site_model_n_params |
Man page
Source code
|
| get_has_non_strict_clock_model |
Man page
Source code
|
| get_inference_model_filenames |
Man page
Source code
|
| get_log_modes |
Man page
Source code
|
| get_log_sorts |
Man page
Source code
|
| get_mcmc_filenames |
Man page
Source code
|
| get_n_taxa |
Man page
Source code
|
| get_operator_id_pre |
Man page
Source code
|
| get_param_names |
Man page
Source code
|
| get_remove_dir_fun |
Man page
Source code
|
| get_remove_hex_fun |
Man page
Source code
|
| get_replace_dir_fun |
Man page
Source code
|
| get_site_model_n_distrs |
Man page
Source code
|
| get_site_model_n_params |
Man page
Source code
|
| get_site_model_names |
Man page
Source code
|
| get_site_models_n_distrs |
Man page
Source code
|
| get_site_models_n_params |
Man page
Source code
|
| get_taxa_names |
Man page
Source code
|
| get_tree_prior_n_distrs |
Man page
Source code
|
| get_tree_prior_n_params |
Man page
Source code
|
| get_tree_prior_names |
Man page
Source code
|
| get_tree_priors_n_distrs |
Man page
Source code
|
| get_tree_priors_n_params |
Man page
Source code
|
| get_xml_closing_tag |
Man page
Source code
|
| get_xml_opening_tag |
Man page
Source code
|
| gtr_site_model_to_xml_prior_distr |
Man page
Source code
|
| gtr_site_model_to_xml_state |
Man page
Source code
|
| has_mrca_prior |
Man page
Source code
|
| has_mrca_prior_with_distr |
Man page
Source code
|
| has_rln_clock_model |
Man page
Source code
|
| has_strict_clock_model |
Man page
Source code
|
| has_tip_dating |
Man page
Source code
|
| has_xml_closing_tag |
Man page
Source code
|
| has_xml_opening_tag |
Man page
Source code
|
| has_xml_short_closing_tag |
Man page
Source code
|
| hky_site_model_to_xml_prior_distr |
Man page
Source code
|
| hky_site_model_to_xml_state |
Man page
Source code
|
| indent |
Man page
Source code
|
| init_bd_tree_prior |
Man page
Source code
|
| init_beta_distr |
Man page
Source code
|
| init_ccp_tree_prior |
Man page
Source code
|
| init_cep_tree_prior |
Man page
Source code
|
| init_clock_models |
Man page
Source code
|
| init_distr |
Man page
Source code
|
| init_exp_distr |
Man page
Source code
|
| init_gamma_distr |
Man page
Source code
|
| init_gamma_site_model |
Man page
Source code
|
| init_gtr_site_model |
Man page
Source code
|
| init_hky_site_model |
Man page
Source code
|
| init_inference_model |
Man page
Source code
|
| init_inv_gamma_distr |
Man page
Source code
|
| init_jc69_site_model |
Man page
Source code
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| init_laplace_distr |
Man page
Source code
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| init_log_normal_distr |
Man page
Source code
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| init_mrca_prior |
Man page
Source code
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| init_mrca_priors |
Man page
Source code
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| init_normal_distr |
Man page
Source code
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| init_one_div_x_distr |
Man page
Source code
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| init_param |
Man page
Source code
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| init_poisson_distr |
Man page
Source code
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| init_rln_clock_model |
Man page
Source code
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| init_site_models |
Man page
Source code
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| init_strict_clock_model |
Man page
Source code
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| init_tn93_site_model |
Man page
Source code
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| init_tree_priors |
Man page
Source code
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| init_uniform_distr |
Man page
Source code
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| init_yule_tree_prior |
Man page
Source code
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| interspace |
Man page
Source code
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| is_alpha_param |
Man page
Source code
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| is_b_pop_sizes_param |
Man page
Source code
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| is_bd_tree_prior |
Man page
Source code
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| is_beauti_options |
Man page
Source code
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| is_beta_distr |
Man page
Source code
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| is_beta_param |
Man page
Source code
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| is_cbs_tree_prior |
Man page
Source code
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| is_ccp_tree_prior |
Man page
Source code
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| is_cep_tree_prior |
Man page
Source code
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| is_clock_model |
Man page
Source code
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| is_clock_model_name |
Man page
Source code
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| is_clock_rate_param |
Man page
Source code
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| is_default_mcmc |
Man page
Source code
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| is_distr |
Man page
Source code
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| is_distr_name |
Man page
Source code
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| is_exp_distr |
Man page
Source code
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| is_freq_equilibrium_name |
Man page
Source code
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| is_freq_param |
Man page
Source code
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| is_gamma_distr |
Man page
Source code
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| is_gamma_site_model |
Man page
Source code
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| is_gtr_site_model |
Man page
Source code
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| is_hky_site_model |
Man page
Source code
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| is_id |
Man page
Source code
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| is_in_patterns |
Man page
Source code
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| is_inference_model |
Man page
Source code
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| is_init_bd_tree_prior |
Man page
Source code
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| is_init_beta_distr |
Man page
Source code
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| is_init_cbs_tree_prior |
Man page
Source code
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| is_init_ccp_tree_prior |
Man page
Source code
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| is_init_cep_tree_prior |
Man page
Source code
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| is_init_clock_model |
Man page
Source code
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| is_init_distr |
Man page
Source code
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| is_init_exp_distr |
Man page
Source code
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| is_init_gamma_distr |
Man page
Source code
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| is_init_gamma_site_model |
Man page
Source code
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| is_init_gtr_site_model |
Man page
Source code
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| is_init_hky_site_model |
Man page
Source code
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| is_init_inv_gamma_distr |
Man page
Source code
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| is_init_jc69_site_model |
Man page
Source code
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| is_init_laplace_distr |
Man page
Source code
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| is_init_log_normal_distr |
Man page
Source code
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| is_init_mrca_prior |
Man page
Source code
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| is_init_normal_distr |
Man page
Source code
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| is_init_one_div_x_distr |
Man page
Source code
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| is_init_param |
Man page
Source code
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| is_init_poisson_distr |
Man page
Source code
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| is_init_rln_clock_model |
Man page
Source code
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| is_init_site_model |
Man page
Source code
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| is_init_strict_clock_model |
Man page
Source code
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| is_init_tn93_site_model |
Man page
Source code
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| is_init_tree_prior |
Man page
Source code
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| is_init_uniform_distr |
Man page
Source code
|
| is_init_yule_tree_prior |
Man page
Source code
|
| is_inv_gamma_distr |
Man page
Source code
|
| is_jc69_site_model |
Man page
Source code
|
| is_kappa_1_param |
Man page
Source code
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| is_kappa_2_param |
Man page
Source code
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| is_kappa_param |
Man page
Source code
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| is_lambda_param |
Man page
Source code
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| is_laplace_distr |
Man page
Source code
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| is_log_normal_distr |
Man page
Source code
|
| is_m_param |
Man page
Source code
|
| is_mcmc |
Man page
Source code
|
| is_mcmc_nested_sampling |
Man page
|
| is_mean_param |
Man page
Source code
|
| is_mrca_align_id_in_fasta |
Man page
Source code
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| is_mrca_align_ids_in_fastas |
Man page
Source code
|
| is_mrca_prior |
Man page
Source code
|
| is_mrca_prior_with_distr |
Man page
Source code
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| is_mu_param |
Man page
Source code
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| is_nested_sampling_mcmc |
Man page
Source code
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| is_normal_distr |
Man page
Source code
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| is_on_appveyor |
Man page
Source code
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| is_on_ci |
Man page
Source code
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| is_on_github_actions |
Man page
Source code
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| is_on_travis |
Man page
Source code
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| is_one_bool |
Man page
Source code
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| is_one_div_x_distr |
Man page
Source code
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| is_one_double |
Man page
Source code
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| is_one_empty_string |
Man page
Source code
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| is_one_int |
Man page
Source code
|
| is_one_na |
Man page
Source code
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| is_one_string |
Man page
Source code
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| is_one_string_that_is_a_number |
Man page
Source code
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| is_param |
Man page
Source code
|
| is_param_name |
Man page
Source code
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| is_phylo |
Man page
Source code
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| is_poisson_distr |
Man page
Source code
|
| is_rate_ac_param |
Man page
Source code
|
| is_rate_ag_param |
Man page
Source code
|
| is_rate_at_param |
Man page
Source code
|
| is_rate_cg_param |
Man page
Source code
|
| is_rate_ct_param |
Man page
Source code
|
| is_rate_gt_param |
Man page
Source code
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| is_rln_clock_model |
Man page
Source code
|
| is_s_param |
Man page
Source code
|
| is_scale_param |
Man page
Source code
|
| is_sigma_param |
Man page
Source code
|
| is_site_model |
Man page
Source code
|
| is_site_model_name |
Man page
Source code
|
| is_strict_clock_model |
Man page
Source code
|
| is_tn93_site_model |
Man page
Source code
|
| is_tree_prior |
Man page
Source code
|
| is_tree_prior_name |
Man page
Source code
|
| is_uniform_distr |
Man page
Source code
|
| is_xml |
Man page
Source code
|
| is_yule_tree_prior |
Man page
Source code
|
| jc69_site_model_to_xml_state |
Man page
Source code
|
| kappa_param_to_xml |
Man page
Source code
|
| m_param_to_xml |
Man page
Source code
|
| mcmc_to_xml_run |
Man page
Source code
|
| mcmc_to_xml_run_default |
Man page
Source code
|
| mcmc_to_xml_run_nested_sampling |
Man page
Source code
|
| mrca_prior_to_xml_prior_distr |
Man page
Source code
|
| mrca_prior_to_xml_state |
Man page
Source code
|
| mrca_prior_to_xml_taxonset |
Man page
Source code
|
| mrca_prior_to_xml_tracelog |
Man page
Source code
|
| mrca_priors_to_xml_prior_distr |
Man page
Source code
|
| no_taxa_to_xml_tree |
Man page
Source code
|
| obj_type_friendly |
Source code
|
| obj_type_oo |
Source code
|
| oxford_comma |
Source code
|
| parameter_to_xml |
Man page
Source code
|
| parameter_to_xml_kappa_1 |
Man page
Source code
|
| parameter_to_xml_kappa_2 |
Man page
Source code
|
| parameter_to_xml_lambda |
Man page
Source code
|
| parameter_to_xml_mean |
Man page
Source code
|
| parameter_to_xml_mu |
Man page
Source code
|
| parameter_to_xml_rate_ac |
Man page
Source code
|
| parameter_to_xml_rate_ag |
Man page
Source code
|
| parameter_to_xml_rate_at |
Man page
Source code
|
| parameter_to_xml_rate_cg |
Man page
Source code
|
| parameter_to_xml_rate_ct |
Man page
Source code
|
| parameter_to_xml_rate_gt |
Man page
Source code
|
| parameter_to_xml_scale |
Man page
Source code
|
| parameter_to_xml_sigma |
Man page
Source code
|
| remove_beautier_folder |
Man page
Source code
|
| remove_empty_lines |
Man page
Source code
|
| remove_multiline |
Man page
Source code
|
| rename_inference_model_filenames |
Man page
Source code
|
| rename_mcmc_filenames |
Man page
Source code
|
| rln_clock_model_to_xml_mean_rate_prior |
Man page
Source code
|
| rln_clock_model_to_xml_operators |
Man page
Source code
|
| rln_clock_model_to_xml_prior_distr |
Man page
Source code
|
| rln_clock_model_to_xml_state |
Man page
Source code
|
| rln_clock_model_to_xml_tracelog |
Man page
Source code
|
| rnd_phylo_to_xml_init |
Man page
Source code
|
| s_parameter_to_xml |
Man page
Source code
|
| site_model_to_xml_operators |
Man page
Source code
|
| site_model_to_xml_prior_distr |
Man page
Source code
|
| site_model_to_xml_state |
Man page
Source code
|
| site_model_to_xml_tracelog |
Man page
Source code
|
| site_models_to_xml_operators |
Man page
Source code
|
| site_models_to_xml_prior_distr |
Man page
Source code
|
| site_models_to_xml_tracelog |
Man page
Source code
|
| stop_input_type |
Source code
|
| strict_clock_model_to_xml_operators |
Man page
Source code
|
| strict_clock_model_to_xml_prior_distr |
Man page
Source code
|
| strict_clock_model_to_xml_state |
Man page
Source code
|
| strict_clock_model_to_xml_tracelog |
Man page
Source code
|
| taxa_to_xml_tree |
Man page
Source code
|
| tipdate_taxa_to_xml_trait |
Man page
Source code
|
| tipdate_taxa_to_xml_tree |
Man page
Source code
|
| tn93_site_model_to_xml_prior_distr |
Man page
Source code
|
| tn93_site_model_to_xml_state |
Man page
Source code
|
| tree_model_to_tracelog_xml |
Man page
Source code
|
| tree_prior_to_xml_operators |
Man page
Source code
|
| tree_prior_to_xml_prior_distr |
Man page
Source code
|
| tree_prior_to_xml_state |
Man page
Source code
|
| tree_prior_to_xml_tracelog |
Man page
Source code
|
| tree_priors_to_xml_prior_distr |
Man page
Source code
|
| tree_priors_to_xml_tracelog |
Man page
Source code
|
| unindent |
Man page
Source code
|
| vec_type_friendly |
Source code
|
| yule_tree_prior_to_xml_operators |
Man page
Source code
|
| yule_tree_prior_to_xml_prior_distr |
Man page
Source code
|
