ibdfindr: HMM Toolkit for Inferring IBD Segments from SNP Genotypes
Implements continuous-time hidden Markov models (HMMs) to infer identity-by-descent (IBD) segments shared by two individuals from their single-nucleotide polymorphism (SNP) genotypes. Provides posterior probabilities at each marker (forward-backward algorithm), prediction of IBD segments (Viterbi algorithm), and functions for visualising results. Supports both autosomal data and X-chromosomal data.
| Version: | 0.3.1 |
| Depends: | R (≥ 4.2) |
| Imports: | forrel,ggplot2,ibdsim2,pedtools,ribd |
| Suggests: | testthat (≥ 3.0.0) |
| Published: | 2025-08-18 |
| DOI: | 10.32614/CRAN.package.ibdfindr |
| Author: | Magnus Dehli Vigeland [aut, cre] |
| Maintainer: | Magnus Dehli Vigeland <m.d.vigeland at medisin.uio.no> |
| BugReports: | https://github.com/magnusdv/ibdfindr/issues |
| License: | GPL (≥ 3) |
| URL: | https://github.com/magnusdv/ibdfindr |
| NeedsCompilation: | no |
| Language: | en-GB |
| Materials: | README,NEWS |
| CRAN checks: | ibdfindr results |
Documentation:
| Reference manual: | ibdfindr.html ,ibdfindr.pdf |
Downloads:
| Package source: | ibdfindr_0.3.1.tar.gz |
| Windows binaries: | r-devel:ibdfindr_0.3.1.zip, r-release:ibdfindr_0.3.1.zip, r-oldrel:ibdfindr_0.3.1.zip |
| macOS binaries: | r-release (arm64):ibdfindr_0.3.1.tgz, r-oldrel (arm64):ibdfindr_0.3.1.tgz, r-release (x86_64):ibdfindr_0.3.1.tgz, r-oldrel (x86_64):ibdfindr_0.3.1.tgz |
Reverse dependencies:
| Reverse imports: | pedsuite |
Linking:
Please use the canonical formhttps://CRAN.R-project.org/package=ibdfindrto link to this page.