ibdsim2: Simulation of Chromosomal Regions Shared by Family Members

Simulation of segments shared identical-by-descent (IBD) by pedigree members. Using sex specific recombination rates along the human genome (Halldorsson et al. (2019) <doi:10.1126/science.aau1043>), phased chromosomes are simulated for all pedigree members. Applications include calculation of realised relatedness coefficients and IBD segment distributions. 'ibdsim2' is part of the 'pedsuite' collection of packages for pedigree analysis. A detailed presentation of the 'ped suite', including a separate chapter on 'ibdsim2', is available in the book 'Pedigree analysis in R' (Vigeland, 2021, ISBN:9780128244302). A 'Shiny' app for visualising and comparing IBD distributions is available at <https://magnusdv.shinyapps.io/ibdsim2-shiny/>.

Version:	2.1.1
Depends:	R (≥ 4.1.0), pedtools (≥ 2.7.0)
Imports:	Rcpp, ggplot2, glue, ribd (≥ 1.6.1)
LinkingTo:	Rcpp
Suggests:	testthat, shiny, shinyjs, lubridate
Published:	2024-09-08
DOI:	10.32614/CRAN.package.ibdsim2
Author:	Magnus Dehli Vigeland [aut, cre]
Maintainer:	Magnus Dehli Vigeland <m.d.vigeland at medisin.uio.no>
License:	GPL-3
URL:	https://github.com/magnusdv/ibdsim2, https://magnusdv.github.io/pedsuite/, https://magnusdv.shinyapps.io/ibdsim2-shiny/
NeedsCompilation:	yes
Language:	en-GB
Citation:	ibdsim2 citation info
Materials:	README NEWS
CRAN checks:	ibdsim2 results

Documentation:

Reference manual:

ibdsim2.pdf

Downloads:

Package source:	ibdsim2_2.1.1.tar.gz
Windows binaries:	r-devel: ibdsim2_2.1.1.zip, r-release: ibdsim2_2.1.1.zip, r-oldrel: ibdsim2_2.1.1.zip
macOS binaries:	r-release (arm64): ibdsim2_2.1.1.tgz, r-oldrel (arm64): ibdsim2_2.1.1.tgz, r-release (x86_64): ibdsim2_2.1.1.tgz, r-oldrel (x86_64): ibdsim2_2.1.1.tgz
Old sources:	ibdsim2 archive

Reverse dependencies:

Reverse imports:	pedsuite
Reverse suggests:	forrel

Linking:

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