calculate_expected_leaves_locustree: Calculate expected leaves of a locus tree
In treeducken: Nested Phylogenetic Tree Simulator

Description Usage Arguments Details Value References Examples

Calculate expected leaves of a locus tree

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calculate_expected_leaves_locustree(t, dup_rate, loss_rate, num_species)

ave_tips_lt(t, dup_rate, loss_rate, num_species)

`t`	time to simulate until (the length of the species tree)
`dup_rate`	gene birth rate
`loss_rate`	gene death rate
`num_species`	number of leaves on the species tree

Calculates the expected number of leaves for a birth-death simulation given a gene birth and death rate, a time, and the number of leaves on the species tree that the locus tree is to be simulated upon.

The expected number of leaves

Mallo, D., de Oliveira Martins, L., & Posada, D. (2016). SimPhy: phylogenomic simulation of gene, locus, and species trees. Systematic biology, 65(2), 334-344.

gene_birth_rate <- 1.0
gene_death_rate <- 0.5
time <- 2
num_species <- 10
ave_tips_lt(time,
                                    gene_birth_rate,
                                    gene_death_rate,
                                    num_species)