DecodeMap: Decode recombination map

In IBDsim: Simulation of Chromosomal Regions Shared by Family Members

Description

A recombination map of the human genome, adapted from the dataset published in (Kong et al., 2010).

Usage

DecodeMap

Format

List of 23 components (one for each chromosome pair). Each is a list of 2 matrices, containing the male and female recombination maps of the given chromosome respectively. The 23rd component has NULL as its first (male) element, as we assume no recombination between sex chromosomes in males. The recombination map matrices have 2 columns, named "Mb" and "cM". The "Mb" column has the base positions of the markers used by (Kong et. al, 2010), and "cM" the genetic distance from the left telomere.

Source

Kong, A. et al. (October 2010) Fine scale recombination rate differences between sexes, populations and individuals. Nature, 467, 1099–1103. doi:10.1038/nature09525.

Examples

#the first entries of the male map of chromosome 1:
head(DecodeMap[[1]]$male)

Example output

Loading required package: paramlink
           Mb       cM
[1,] 0.000001 0.000000
[2,] 3.480967 0.000000
[3,] 3.497721 0.121450
[4,] 3.502660 0.194631
[5,] 3.510731 0.194641
[6,] 3.521455 0.243350

IBDsim documentation built on May 2, 2019, 6:01 a.m.