CRAN/E | SeqKat

SeqKat

Detection of Kataegis

Installation

About

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.

Key Metrics

Version 0.0.8
R ≥ 2.15.1
Published 2020-03-11 1359 days ago
Needs compilation? yes
License GPL-2
CRAN checks SeqKat results

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Maintainer

Maintainer

Paul C. Boutros

pboutros@mednet.ucla.edu

Authors

Fouad Yousif
Xihui Lin
Fan Fan
Christopher Lalansingh
John Macdonald

Material

NEWS
Reference manual
Package source

Vignettes

SeqKat

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

SeqKat archive

Depends

R ≥ 2.15.1
foreach
doParallel

Imports

Rcpp ≥ 0.11.0

Suggests

testthat
doMC
rmarkdown
knitr

LinkingTo

Rcpp