beautier-package	beautier
are_clock_models	are_clock_models
are_equal_mcmcs	are_equal_mcmcs
are_equivalent_xml_lines	are_equivalent_xml_lines
are_equivalent_xml_lines_all	are_equivalent_xml_lines_all
are_equivalent_xml_lines_loggers	are_equivalent_xml_lines_loggers
are_equivalent_xml_lines_operators	are_equivalent_xml_lines_operators
are_equivalent_xml_lines_section	are_equivalent_xml_lines_section
are_site_models	are_site_models
are_tree_priors	are_tree_priors
bd_tree_prior_to_xml_prior_distr	bd_tree_prior_to_xml_prior_distr
beautier	beautier
cbs_tree_prior_to_xml_prior_distr	cbs_tree_prior_to_xml_prior_distr
ccp_tree_prior_to_xml_prior_distr	ccp_tree_prior_to_xml_prior_distr
cep_tree_prior_to_xml_prior_distr	cep_tree_prior_to_xml_prior_distr
check_beauti_options	check_beauti_options
check_clock_model	check_clock_model
check_clock_models	check_clock_models
check_inference_model	check_inference_model
check_inference_models	check_inference_models
check_mcmc	check_mcmc
check_mrca_prior	check_mrca_prior
check_phylogeny	check_phylogeny
check_rln_clock_model	check_rln_clock_model
check_site_model	check_site_model
check_site_models	check_site_models
check_strict_clock_model	check_strict_clock_model
check_tree_prior	check_tree_prior
check_tree_priors	check_tree_priors
create_alpha_param	create_alpha_param
create_bd_tree_prior	create_bd_tree_prior
create_beast2_input	create_beast2_input
create_beast2_input_distr_lh	create_beast2_input_distr_lh
create_beast2_input_distr_prior	create_beast2_input_distr_prior
create_beast2_input_file	create_beast2_input_file
create_beast2_input_file_from_model	create_beast2_input_file_from_model
create_beast2_input_screenlog	create_beast2_input_screenlog
create_beast2_input_tracelog	create_beast2_input_tracelog
create_beast2_input_treelogs	create_beast2_input_treelogs
create_beauti_options	create_beauti_options
create_beta_distr	create_beta_distr
create_beta_param	create_beta_param
create_cbs_tree_prior	create_cbs_tree_prior
create_ccp_tree_prior	create_ccp_tree_prior
create_cep_tree_prior	create_cep_tree_prior
create_clock_model	create_clock_model
create_clock_models	create_clock_models
create_clock_models_from_names	create_clock_models_from_names
create_clock_model_from_name	create_clock_model_from_name
create_clock_model_rln	create_rln_clock_model
create_clock_model_strict	create_strict_clock_model
create_clock_rate_param	create_clock_rate_param
create_distr	create_distr
create_distr_beta	create_beta_distr
create_distr_exp	create_exp_distr
create_distr_gamma	create_gamma_distr
create_distr_inv_gamma	create_inv_gamma_distr
create_distr_laplace	create_laplace_distr
create_distr_log_normal	create_log_normal_distr
create_distr_normal	create_normal_distr
create_distr_one_div_x	create_one_div_x_distr
create_distr_poisson	create_poisson_distr
create_distr_uniform	create_uniform_distr
create_exp_distr	create_exp_distr
create_gamma_distr	create_gamma_distr
create_gamma_site_model	create_gamma_site_model
create_gtr_site_model	create_gtr_site_model
create_hky_site_model	create_hky_site_model
create_inference_model	create_inference_model
create_inv_gamma_distr	create_inv_gamma_distr
create_jc69_site_model	create_jc69_site_model
create_kappa_1_param	create_kappa_1_param
create_kappa_2_param	create_kappa_2_param
create_lambda_param	create_lambda_param
create_laplace_distr	create_laplace_distr
create_log_normal_distr	create_log_normal_distr
create_mcmc	create_mcmc
create_mcmc_nested_sampling	create_nested_sampling_mcmc
create_mean_param	create_mean_param
create_mrca_prior	create_mrca_prior
create_mu_param	create_mu_param
create_m_param	create_m_param
create_nested_sampling_mcmc	create_nested_sampling_mcmc
create_normal_distr	create_normal_distr
create_one_div_x_distr	create_one_div_x_distr
create_param	create_param
create_param_alpha	create_alpha_param
create_param_beta	create_beta_param
create_param_clock_rate	create_clock_rate_param
create_param_kappa_1	create_kappa_1_param
create_param_kappa_2	create_kappa_2_param
create_param_lambda	create_lambda_param
create_param_m	create_m_param
create_param_mean	create_mean_param
create_param_mu	create_mu_param
create_param_rate_ac	create_rate_ac_param
create_param_rate_ag	create_rate_ag_param
create_param_rate_at	create_rate_at_param
create_param_rate_cg	create_rate_cg_param
create_param_rate_ct	create_rate_ct_param
create_param_rate_gt	create_rate_gt_param
create_param_s	create_s_param
create_param_scale	create_scale_param
create_param_sigma	create_sigma_param
create_poisson_distr	create_poisson_distr
create_rate_ac_param	create_rate_ac_param
create_rate_ag_param	create_rate_ag_param
create_rate_at_param	create_rate_at_param
create_rate_cg_param	create_rate_cg_param
create_rate_ct_param	create_rate_ct_param
create_rate_gt_param	create_rate_gt_param
create_rln_clock_model	create_rln_clock_model
create_scale_param	create_scale_param
create_sigma_param	create_sigma_param
create_site_model	create_site_model
create_site_models	create_site_models
create_site_models_from_names	create_site_models_from_names
create_site_model_from_name	create_site_model_from_name
create_site_model_gtr	create_gtr_site_model
create_site_model_hky	create_hky_site_model
create_site_model_jc69	create_jc69_site_model
create_site_model_tn93	create_tn93_site_model
create_strict_clock_model	create_strict_clock_model
create_s_param	create_s_param
create_tn93_site_model	create_tn93_site_model
create_tree_prior	create_tree_prior
create_tree_priors	create_tree_priors
create_tree_priors_from_names	create_tree_priors_from_names
create_tree_prior_bd	create_bd_tree_prior
create_tree_prior_cbs	create_cbs_tree_prior
create_tree_prior_ccp	create_ccp_tree_prior
create_tree_prior_cep	create_cep_tree_prior
create_tree_prior_from_name	create_tree_prior_from_name
create_tree_prior_yule	create_yule_tree_prior
create_uniform_distr	create_uniform_distr
create_yule_tree_prior	create_yule_tree_prior
default_parameters_doc	default_parameters_doc
default_params_doc	default_params_doc
distr_to_xml_beta	distr_to_xml_beta
distr_to_xml_exp	distr_to_xml_exp
distr_to_xml_gamma	distr_to_xml_gamma
distr_to_xml_inv_gamma	distr_to_xml_inv_gamma
distr_to_xml_laplace	distr_to_xml_laplace
distr_to_xml_log_normal	distr_to_xml_log_normal
distr_to_xml_normal	distr_to_xml_normal
distr_to_xml_one_div_x	distr_to_xml_one_div_x
distr_to_xml_poisson	distr_to_xml_poisson
distr_to_xml_uniform	distr_to_xml_uniform
fastas_to_phylos	fastas_to_phylos
fasta_to_phylo	fasta_to_phylo
get_alignment_id	get_alignment_id
get_alignment_ids	get_alignment_ids
get_beautier_path	get_beautier_path
get_beautier_paths	get_beautier_paths
get_clock_model_names	get_clock_model_names
get_crown_age	get_crown_age
get_fasta_filename	get_fasta_filename
get_gamma_site_model_n_distrs	get_gamma_site_model_n_distrs
get_site_model_names	get_site_model_names
get_taxa_names	get_taxa_names
get_tree_prior_names	get_tree_prior_names
has_mrca_prior	has_mrca_prior
init_bd_tree_prior	init_bd_tree_prior
init_ccp_tree_prior	init_ccp_tree_prior
init_cep_tree_prior	init_cep_tree_prior
init_gtr_site_model	init_gtr_site_model
init_hky_site_model	init_hky_site_model
init_jc69_site_model	init_jc69_site_model
init_rln_clock_model	init_rln_clock_model
init_strict_clock_model	init_strict_clock_model
init_tn93_site_model	init_tn93_site_model
init_yule_tree_prior	init_yule_tree_prior
is_bd_tree_prior	is_bd_tree_prior
is_cbs_tree_prior	is_cbs_tree_prior
is_ccp_tree_prior	is_ccp_tree_prior
is_cep_tree_prior	is_cep_tree_prior
is_clock_model	is_clock_model
is_init_beta_distr	is_init_beta_distr
is_init_cep_tree_prior	is_init_cep_tree_prior
is_init_exp_distr	is_init_exp_distr
is_init_gamma_distr	is_init_gamma_distr
is_init_inv_gamma_distr	is_init_inv_gamma_distr
is_init_laplace_distr	is_init_laplace_distr
is_init_log_normal_distr	is_init_log_normal_distr
is_init_normal_distr	is_init_normal_distr
is_init_one_div_x_distr	is_init_one_div_x_distr
is_init_poisson_distr	is_init_poisson_distr
is_init_uniform_distr	is_init_uniform_distr
is_mcmc	is_mcmc
is_mcmc_nested_sampling	is_mcmc_nested_sampling
is_nested_sampling_mcmc	is_mcmc_nested_sampling
is_one_na	is_one_na
is_phylo	is_phylo
is_site_model	is_site_model
is_tree_prior	is_tree_prior
is_yule_tree_prior	is_yule_tree_prior
parameter_to_xml_alpha	parameter_to_xml_alpha
parameter_to_xml_beta	parameter_to_xml_beta
parameter_to_xml_clock_rate	parameter_to_xml_clock_rate
parameter_to_xml_kappa_1	parameter_to_xml_kappa_1
parameter_to_xml_kappa_2	parameter_to_xml_kappa_2
parameter_to_xml_lambda	parameter_to_xml_lambda
parameter_to_xml_m	parameter_to_xml_m
parameter_to_xml_mean	parameter_to_xml_mean
parameter_to_xml_mu	parameter_to_xml_mu
parameter_to_xml_rate_ac	parameter_to_xml_rate_ac
parameter_to_xml_rate_ag	parameter_to_xml_rate_ag
parameter_to_xml_rate_at	parameter_to_xml_rate_at
parameter_to_xml_rate_cg	parameter_to_xml_rate_cg
parameter_to_xml_rate_ct	parameter_to_xml_rate_ct
parameter_to_xml_rate_gt	parameter_to_xml_rate_gt
parameter_to_xml_s	parameter_to_xml_s
parameter_to_xml_scale	parameter_to_xml_scale
parameter_to_xml_sigma	parameter_to_xml_sigma
yule_tree_prior_to_xml_prior_distr	yule_tree_prior_to_xml_prior_distr
