ancestry_module: Creates a module to start simulations tracking local ancestry

In thijsjanzen/GenomeAdmixR: Simulate Admixture of Genomes

Creates a module to start simulations tracking local ancestry

Description

Module to perform simulations based on local ancestry

Usage

ancestry_module(
  input_population = NA,
  number_of_founders = 2,
  initial_frequencies = NA,
  morgan = 1,
  markers = NA,
  track_junctions = FALSE
)

Arguments

input_population	Potential earlier simulated population used as starting point for the simulation. If not provided by the user, the simulation starts from scratch.
number_of_founders	Number of unique ancestors / ancestries to be tracked in the simulation
initial_frequencies	A vector describing the initial frequency of each ancestor / ancestry. By default, equal frequencies are assumed. If a vector not summing to 1 is provided, the vector is normalized.
morgan	Length of the genomic stretch simulated, expressed in Morgan (e.g. the number of crossovers during meiosis)
markers	A vector of locations of markers, with the location in Morgan. Ancestry at these marker positions is tracked for every generation.
track_junctions	Tracks the average number of junctions over time if TRUE

Value

list with type = "Ancestry". Can be used in simulate_admixture.

thijsjanzen/GenomeAdmixR documentation built on Feb. 16, 2024, 7:27 p.m.