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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 'ped suite' 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: | 2.1.0 |
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: | 2024-08-17 |
DOI: | 10.32614/CRAN.package.ibdsim2 |
Author: | Magnus Dehli Vigeland
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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 |
Reference manual: | ibdsim2.pdf |
Package source: | ibdsim2_2.1.0.tar.gz |
Windows binaries: | r-devel: ibdsim2_2.1.0.zip, r-release: ibdsim2_2.1.0.zip, r-oldrel: ibdsim2_2.1.0.zip |
macOS binaries: | r-release (arm64): ibdsim2_2.1.0.tgz, r-oldrel (arm64): ibdsim2_2.1.0.tgz, r-release (x86_64): ibdsim2_2.1.0.tgz, r-oldrel (x86_64): ibdsim2_2.1.0.tgz |
Old sources: | ibdsim2 archive |
Reverse imports: | pedsuite |
Reverse suggests: | forrel |
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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.