Package: ibdfindr
Title: HMM Toolkit for Inferring IBD Segments from SNP Data
Version: 0.5.0
Authors@R: 
    person("Magnus Dehli", "Vigeland", , "m.d.vigeland@medisin.uio.no", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0002-9134-4962"))
Description: Implements continuous-time hidden Markov models (HMMs) to
        infer identity-by-descent (IBD) segments shared by two
        individuals. Supports two- and three-state models using
        single-nucleotide polymorphism (SNP) genotypes or genotype
        likelihoods.  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. The
        methodology and package are described in Vigeland et al. (2026)
        <doi:10.1016/j.fsigen.2025.103409>.
License: GPL (>= 3)
URL: https://github.com/magnusdv/ibdfindr
BugReports: https://github.com/magnusdv/ibdfindr/issues
Depends: R (>= 4.4)
Imports: forrel, ggplot2, ibdsim2, pedtools, ribd
Suggests: testthat (>= 3.0.0)
Config/roxygen2/version: 8.1.0
Config/testthat/edition: 3
Encoding: UTF-8
Language: en-GB
LazyData: true
Roxygen: list(markdown = TRUE)
Repository: https://magnusdv.r-universe.dev
Date/Publication: 2026-10-04 15:29:42 UTC
RemoteUrl: https://github.com/magnusdv/ibdfindr
RemoteRef: HEAD
RemoteSha: 4fe06909e753ad07c4791f82d01a3099bf1ea06d
NeedsCompilation: no
Packaged: 2026-10-13 20:04:38 UTC; root
Author: Magnus Dehli Vigeland [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-9134-4962>)
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>