swfsim: The Structured Wright Fisher Model Output This S3 class...

In nickbrazeau/polySimIBD: Structured Wright Fisher Simulator for Malaria Genetics

The Structured Wright Fisher Model Output This S3 class represents realization of the Spatial Discrete-Time Discrete-Loci Structured Wright Fisher Malaria Model.

Description

The realization of the Discrete-Time Discrete-Loci Spatial Wright Fisher Malaria Model contains all of the information to create the ARG: each generation's parents, the resulting recombination events between parents, and the offspring haplotypes

Fields

pos

vector; the genomic coordinates for chromosome and position of the sites

coi

vector; the COI of each host

recomb

list; recombination blocks for each ancestral host for each generation

parent_host1

list; parent for host 1 for each generation

parent_host2

list; parent for host 2 for each generation

parent_haplo1

list; haplotypes for parent 1 for each generation

parent_haplo2

list; haplotypes for parent 2 for each generation

nickbrazeau/polySimIBD documentation built on Sept. 26, 2024, 5:29 p.m.