sim.coalescent: Simulate a Sample of Genes Using the Coalescent

In infeR: A pedagogical tool to teach the basics of inference in population genetics

Description

Simulate a sample of genes using the coalescent.

Usage

  sim.coalescent(total.number.of.demes,effective.size,migration.rate,mutation.rate,number.of.sampled.demes,sample.sizes,number.of.loci)

Arguments

total.number.of.demes	total number of demes in the island model
effective.size	effective population size of each deme
migration.rate	rate of migration among demes
mutation.rate	mutation rate. The model assumes a 2-alleles model of mutations
number.of.sampled.demes	number of demes sampled
sample.sizes	number of genes sampled in each deme
number.of.loci	number of loci

Details

Simulate a sample of genes, using a coalescent-based simulator.

Value

a ‘sample’ object

Examples

## This is to simulate a sample of genes.

sample <- sim.coalescent(total.number.of.demes = 100,effective.size = 1000,migration.rate = 0.001,mutation.rate = 0.000001,number.of.sampled.demes = 10,sample.sizes = 50,number.of.loci = 2)
sample

infeR documentation built on May 2, 2019, 4:45 p.m.