Package: SeqKat
Type: Package
Title: Detection of Kataegis
Version: 0.0.9
Authors@R: c(
    person("Fouad", "Yousif", role = "aut"),
    person("Xihui", "Lin", role = "aut"),
    person("Fan", "Fan", role = "aut"),
    person("Christopher", "Lalansingh", role = "aut"),
    person("John", "Macdonald", role = "aut"),
    person("Paul", "C. Boutros", role = "cre", email = "pboutros@sbpdiscovery.org")
  )
URL: https://github.com/TheBoutrosLab/package-SeqKat
BugReports: https://github.com/TheBoutrosLab/package-SeqKat/issues
Description: Kataegis is a localized hypermutation occurring when a region is enriched in somatic SNVs. Kataegis can result from multiple cytosine deaminations catalyzed by the AID/APOBEC family of proteins. This package contains functions to detect kataegis from SNVs in BED format. This package reports two scores per kataegic event, a hypermutation score and an APOBEC mediated kataegic score. Yousif, F. et al.; The Origins and Consequences of Localized and Global Somatic Hypermutation; Biorxiv 2018 <doi:10.1101/287839>.
Depends: R (>= 2.15.1), foreach, doParallel
Imports: Rcpp (>= 0.11.0)
LinkingTo: Rcpp
Suggests: testthat, doMC, rmarkdown, knitr
License: GPL (>= 2)
RoxygenNote: 6.0.1
VignetteBuilder: rmarkdown, knitr
NeedsCompilation: yes
Packaged: 2026-01-23 23:33:50 UTC; rhughwhite
Author: Fouad Yousif [aut],
  Xihui Lin [aut],
  Fan Fan [aut],
  Christopher Lalansingh [aut],
  John Macdonald [aut],
  Paul C. Boutros [cre]
Maintainer: Paul C. Boutros <pboutros@sbpdiscovery.org>
Repository: CRAN
Date/Publication: 2026-01-24 00:20:01 UTC
Built: R 4.6.0; x86_64-apple-darwin20; 2026-04-25 15:45:04 UTC; unix
Archs: SeqKat.so.dSYM
