Package: inferRecom
Title: Homologous Recombination Detection in Family Pedigrees
Version: 0.99.1
Authors@R: c(
    person("Catherine", "Mahoney", 
      email = "catherine.f.mahoney@gmail.com", 
      role = c("aut", "cre"),
      comment = c(ORCID = "0000-0003-0424-104X")),
    person("Michael", "Salter-Townshend", 
      email = "michael.salter-townshend@ucd.ie", 
      role = c("aut"),
      comment = c(ORCID = "0000-0001-6232-9109")),
    person("Denis", "Shields", 
      email = "denis.shields@ucd.ie", 
      role = c("aut"),
      comment = c(ORCID = "0000-0003-4015-2474")),
    person(
      given = "Irish Research Council",
      role = "fnd",                  
      comment = "Grant EPSPG/2019/443"
    ))
Description: This package implements a pedigree-based algorithm to
        detect homologous recombination. Additional functions are
        supplied to detect runs of homozygosity and to phase haplotypes
        at informative SNPs.
License: GPL (>= 3)
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
VignetteBuilder: knitr
biocViews: Genetics, SNP, GenomeAnnotation, Sequencing, Coverage
Depends: R (>= 4.5.0), SummarizedExperiment, GenomicRanges, S4Vectors
Imports: methods, utils, IRanges, snpStats, BiocParallel, dplyr, stats
Suggests: testthat (>= 3.0.0), knitr, rmarkdown, BiocStyle,
        rtracklayer, trackViewer
BugReports: https://github.com/catherinefayemahoney/inferRecom/issues
URL: https://github.com/catherinefayemahoney/inferRecom
Config/testthat/edition: 3
Config/pak/sysreqs: zlib1g-dev
Repository: https://biocstaging.r-universe.dev
Date/Publication: 2026-01-05 19:05:27 UTC
RemoteUrl: https://github.com/BiocStaging/inferRecom
RemoteRef: HEAD
RemoteSha: 820b7fd7f8146d2e82eeac2cf308e455a78444df
NeedsCompilation: no
Packaged: 2026-07-02 21:05:11 UTC; root
Author: Catherine Mahoney [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-0424-104X>),
  Michael Salter-Townshend [aut] (ORCID:
    <https://orcid.org/0000-0001-6232-9109>),
  Denis Shields [aut] (ORCID: <https://orcid.org/0000-0003-4015-2474>),
  Irish Research Council [fnd] (Grant EPSPG/2019/443)
Maintainer: Catherine Mahoney <catherine.f.mahoney@gmail.com>