castor-package	castor
asr_empirical_probabilities	asr_empirical_probabilities
asr_independent_contrasts	asr_independent_contrasts
asr_max_parsimony	asr_max_parsimony
asr_mk_model	asr_mk_model
asr_squared_change_parsimony	asr_squared_change_parsimony
asr_subtree_averaging	asr_subtree_averaging
castor	castor
clade_densities	clade_densities
collapse_monofurcations	collapse_monofurcations
collapse_tree_at_resolution	collapse_tree_at_resolution
congruent_divergence_times	congruent_divergence_times
congruent_hbds_model	congruent_hbds_model
consensus_taxonomies	consensus_taxonomies
consentrait_depth	consentrait_depth
correlate_discrete_traits	correlate_discrete_traits
correlate_phylo_geodistances	correlate_phylo_geodistances
count_lineages_through_time	count_lineages_through_time
count_tips_per_node	count_tips_per_node
count_transitions_between_clades	count_transitions_between_clades
date_tree_red	date_tree_red
discrete_trait_depth	discrete_trait_depth
evaluate_spline	evaluate_spline
expanded_tree_from_jplace	expanded_tree_from_jplace
expected_distances_sbm	expected_distances_sbm
exponentiate_matrix	exponentiate_matrix
extend_tree_to_height	extend_tree_to_height
extract_deep_frame	extract_deep_frame
extract_fasttree_constraints	extract_fasttree_constraints
extract_tip_neighborhood	extract_tip_neighborhood
extract_tip_radius	extract_tip_radius
find_farthest_tips	find_farthest_tips
find_farthest_tip_pair	find_farthest_tip_pair
find_nearest_tips	find_nearest_tips
find_root	find_root
find_root_of_monophyletic_tips	find_root_of_monophyletic_tips
fit_and_compare_bm_models	fit_and_compare_bm_models
fit_and_compare_sbm_const	fit_and_compare_sbm_const
fit_bm_model	fit_bm_model
fit_hbds_model_on_grid	fit_hbds_model_on_grid
fit_hbds_model_parametric	fit_hbds_model_parametric
fit_hbd_model_on_grid	fit_hbd_model_on_grid
fit_hbd_model_parametric	fit_hbd_model_parametric
fit_hbd_pdr_on_best_grid_size	fit_hbd_pdr_on_best_grid_size
fit_hbd_pdr_on_grid	fit_hbd_pdr_on_grid
fit_hbd_pdr_parametric	fit_hbd_pdr_parametric
fit_hbd_psr_on_best_grid_size	fit_hbd_psr_on_best_grid_size
fit_hbd_psr_on_grid	fit_hbd_psr_on_grid
fit_hbd_psr_parametric	fit_hbd_psr_parametric
fit_mk	fit_mk
fit_musse	fit_musse
fit_sbm_const	fit_sbm_const
fit_sbm_geobiased_const	fit_sbm_geobiased_const
fit_sbm_linear	fit_sbm_linear
fit_sbm_on_grid	fit_sbm_on_grid
fit_sbm_parametric	fit_sbm_parametric
fit_tree_model	fit_tree_model
gamma_statistic	gamma_statistic
generate_gene_tree_msc	generate_gene_tree_msc
generate_gene_tree_msc_hgt_dl	generate_gene_tree_msc_hgt_dl
generate_random_tree	generate_random_tree
generate_tree_hbds	generate_tree_hbds
generate_tree_hbd_reverse	generate_tree_hbd_reverse
generate_tree_with_evolving_rates	generate_tree_with_evolving_rates
geographic_acf	geographic_acf
get_all_distances_to_root	get_all_distances_to_root
get_all_distances_to_tip	get_all_distances_to_tip
get_all_node_depths	get_all_node_depths
get_all_pairwise_distances	get_all_pairwise_distances
get_ancestral_nodes	get_ancestral_nodes
get_clade_list	get_clade_list
get_independent_contrasts	get_independent_contrasts
get_independent_sister_tips	get_independent_sister_tips
get_mrca_of_set	get_mrca_of_set
get_pairwise_distances	get_pairwise_distances
get_pairwise_mrcas	get_pairwise_mrcas
get_random_diffusivity_matrix	get_random_diffusivity_matrix
get_random_mk_transition_matrix	get_random_mk_transition_matrix
get_reds	get_reds
get_stationary_distribution	get_stationary_distribution
get_subtrees_at_nodes	get_subtrees_at_nodes
get_subtree_at_node	get_subtree_at_node
get_subtree_with_tips	get_subtree_with_tips
get_tips_for_mrcas	get_tips_for_mrcas
get_trait_acf	get_trait_acf
get_trait_stats_over_time	get_trait_stats_over_time
get_transition_index_matrix	get_transition_index_matrix
get_tree_span	get_tree_span
get_tree_traversal_root_to_tips	get_tree_traversal_root_to_tips
hsp_binomial	hsp_binomial
hsp_empirical_probabilities	hsp_empirical_probabilities
hsp_independent_contrasts	hsp_independent_contrasts
hsp_max_parsimony	hsp_max_parsimony
hsp_mk_model	hsp_mk_model
hsp_naive	hsp_naive
hsp_nearest_neighbor	hsp_nearest_neighbor
hsp_squared_change_parsimony	hsp_squared_change_parsimony
hsp_subtree_averaging	hsp_subtree_averaging
inherit_taxonomies	inherit_taxonomies
is_bifurcating	is_bifurcating
is_monophyletic	is_monophyletic
join_rooted_trees	join_rooted_trees
loglikelihood_hbd	loglikelihood_hbd
map_to_state_space	map_to_state_space
mean_abs_change_scalar_ou	mean_abs_change_scalar_ou
merge_nodes_to_multifurcations	merge_nodes_to_multifurcations
merge_short_edges	merge_short_edges
model_adequacy_hbd	model_adequacy_hbd
model_adequacy_hbds	model_adequacy_hbds
multifurcations_to_bifurcations	multifurcations_to_bifurcations
pick_random_tips	pick_random_tips
place_tips_taxonomically	place_tips_taxonomically
plot_tree_radial	plot_tree_radial
read_fasta	read_fasta
read_fastq	read_fastq
read_tree	read_tree
reconstruct_past_diversification	reconstruct_past_diversification
reorder_tree_edges	reorder_tree_edges
root_at_midpoint	root_at_midpoint
root_at_node	root_at_node
root_in_edge	root_in_edge
root_via_outgroup	root_via_outgroup
root_via_rtt	root_via_rtt
shift_clade_times	shift_clade_times
simulate_bm_model	simulate_bm_model
simulate_deterministic_hbd	simulate_deterministic_hbd
simulate_deterministic_hbds	simulate_deterministic_hbds
simulate_diversification_model	simulate_diversification_model
simulate_dsse	simulate_dsse
simulate_mk_model	simulate_mk_model
simulate_musse	simulate_dsse
simulate_ou_model	simulate_ou_model
simulate_rou_model	simulate_rou_model
simulate_sbm	simulate_sbm
simulate_tdsse	simulate_tdsse
spline_coefficients	spline_coefficients
split_tree_at_height	split_tree_at_height
tree_distance	tree_distance
tree_from_branching_ages	tree_from_branching_ages
tree_from_sampling_branching_ages	tree_from_sampling_branching_ages
tree_from_taxa	tree_from_taxa
tree_imbalance	tree_imbalance
trim_tree_at_height	trim_tree_at_height
write_tree	write_tree
