Package: SeqKat
Type: Package
Title: Detection of Kataegis
Version: 0.0.8
Date: 2020-03-09
Author: Fouad Yousif, Xihui Lin, Fan Fan, Christopher Lalansingh, John Macdonald
Maintainer: Paul C. Boutros <pboutros@mednet.ucla.edu>
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
LazyLoad: yes
RoxygenNote: 6.0.1
VignetteBuilder: rmarkdown, knitr
NeedsCompilation: yes
Packaged: 2020-03-09 21:07:12 UTC; root
Repository: CRAN
Date/Publication: 2020-03-11 00:40:02 UTC
Built: R 4.0.0; x86_64-w64-mingw32; 2020-04-10 06:11:14 UTC; windows
Archs: i386, x64
