IBDMatrix: Binary Matrix of IBD

In bahlolab/isoRelate: Identity-by-Descent Inference of Haploid Recombining Organisms

Description

Creates a binary matrix of IBD (1) and non-IBD (0) with each row representing a single SNP and each column representing a unique pair. The number of rows is equal to the total number of SNPs and the number of columns is equal to the number of pairs.

Usage

IBDMatrix(chromosomes, positions_bp, number_pairs, ibd_pairs_colnumbers,
  ibd_chromosomes, ibd_start_bp, ibd_stop_bp)

Arguments

chromosomes	A character vector containing the corresponding chromosome for each SNP
positions_bp	A numeric vector containing the corresponding bp position for each SNP
number_pairs	Numeric. The total number of pairs analysed
ibd_pairs_colnumbers	A numeric vector corresponding to column numbers in the output matrix where each unique number refers to a unique pair with IBD inferred
ibd_chromosomes	A character vector containing the chromosome for each detected IBD segment
ibd_start_bp	A numeric vector containing the base-pair position for the start of each detected IBD segment
ibd_stop_bp	A numeric vector containing the base-pair position for the end of each detected IBD segment

bahlolab/isoRelate documentation built on May 11, 2019, 5:25 p.m.