SeqKat: Detection of Kataegis

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. SeqKat reports two scores per kataegic event, a hypermutation score and an APOBEC mediated kataegic score. Upon publication of the paper describing the methods used in this package, a reference will be added here.

Version: 0.0.4
Depends: R (≥ 2.15.1), foreach, doParallel
Imports: Rcpp (≥ 0.11.0)
LinkingTo: Rcpp
Suggests: testthat, doMC, rmarkdown, knitr
Published: 2017-06-25
Author: Fouad Yousif, Xihui Lin, Fan Fan, Christopher Lalansingh
Maintainer: Paul C. Boutros <Paul.Boutros at>
License: GPL-2
NeedsCompilation: yes
CRAN checks: SeqKat results


Reference manual: SeqKat.pdf
Vignettes: SeqKat
Package source: SeqKat_0.0.4.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
OS X El Capitan binaries: r-release: SeqKat_0.0.4.tgz
OS X Mavericks binaries: r-oldrel: SeqKat_0.0.4.tgz


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