junctions-package {junctions}R Documentation

Extending The Theory of Junctions

Description

The theory of junctions is extended by this package by including the effect of a finite number of recombination sites along the chromosome. The package provides functions to calculate the estimated number of junctions, depending on the time since the onset of hybridization, population size, number of recombination sites, initial heterozygosity and the number of crossovers per meiosis.

Details

This package provides individual based simulations in order to simulate the accumulation of junctions over time, both for chromosomes with a finite and an infinite number of recombination sites. Furthermore, the package provides mathetematical tools to verify the outcomes of the individual based simulations.

Update version 1.1: updated underlying random number generator for picking recombination sites. The previous generator had limited precision, which could generate duplicate recombination sites. This update fixes that

Author(s)

Maintainer: Thijs Janzen <thijsjanzen@gmail.com>

References

Janzen, T. , Nolte, A. W. and Traulsen, A. (2018), The breakdown of genomic ancestry blocks in hybrid lineages given a finite number of recombination sites. Evolution, 72: 735-750. doi:10.1111/evo.13436


[Package junctions version 1.1 Index]