simulatePhyloCRBD: Simulate phylogenies under the CRBD model

In ilajaait/deephylo: Infer Parameters from Phylogenies with Deep-Learning

Simulate phylogenies under the CRBD model

Description

Generate a list of phylogenies under the Constant Rate Birth Death (CRBD) model. Can check and save summary statistics of each phylogeny by activating sumstat_check. Moreover true parameters of each phylogeny are also returned.

Usage

simulatePhyloCRBD(
  n.phylo,
  tips.lim,
  lambda.lim,
  sumstat_check = T,
  verbose = F
)

Arguments

n.phylo	number of phylogenies to simulate
tips.lim	phylogeny size range
lambda.lim	speciation rate range
sumstat_check	whether to check that summary statistics can be computed for each phylogeny and save them (logical)
verbose	whether to print progress (logical)

Value

list

• $phylo: list of simulated phylogenies (ape format)

• $params: dataframe of phylogeny parameters

• $sumstat: dataframe of phylogeny summary statistics (empty if ss_check = FALSE)

See Also

simulatePhyloBiSSE

Examples

simulatePhyloCRBD(10, c(50, 100), c(0.1, 1.)) # simulate 10 phylo

ilajaait/deephylo documentation built on April 10, 2022, 11:03 a.m.