Function reference • geese

All functions
`new_flock()` `add_geese()`	Flock of GEESE
`new_geese()`	GEne Evolutionary model using SufficiEncy (GEESE)
`init_model()` `nterms()` `nnodes()` `ntrees()` `nleafs()` `likelihood()` `get_probabilities()` `get_sequence()` `set_seed()` `sim_geese()` `observed_counts()` `print_observed_counts()` `support_size()` `parse_polytomies()` `nfuns()` `names(<geese>)` `predict_geese()` `predict_flock()` `predict_geese_simulate()` `names(<flock>)` `print(<geese>)` `print_nodes()` `print(<flock>)`	Common functions for `geese` and `flock`.
`rule_limit_changes()` `term_gains()` `term_loss()` `term_cogain()` `term_neofun()` `term_subfun()` `term_maxfuns()` `term_overall_changes()` `term_overall_gains()` `term_overall_loss()` `term_kgains()` `term_neofun_a2b()` `term_genes_changing()` `term_prop_genes_changing()` `term_coopt()` `term_k_genes_changing()` `term_less_than_p_prop_genes_changing()` `term_pairwise_preserving()` `term_gains_from_0()` `term_overall_gains_from_0()` `term_pairwise_first_gain()` `term_preserve_pseudogene()` `term_pairwise_overall_change()` `term_pairwise_neofun_singlefun()`	Evolutionary terms
`geese_mcmc()`	MCMC for geese
`geese_mle()`	MLE for geese
`get_support()`	Returns the support of the model
`transition_prob()` `conditional_prob()`	Compute the transition probability

Reference