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. 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>.
| Version: | 0.0.9 |
| Depends: | R (≥ 2.15.1),foreach,doParallel |
| Imports: | Rcpp (≥ 0.11.0) |
| LinkingTo: | Rcpp |
| Suggests: | testthat,doMC,rmarkdown,knitr |
| Published: | 2026-01-24 |
| DOI: | 10.32614/CRAN.package.SeqKat |
| 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 at sbpdiscovery.org> |
| BugReports: | https://github.com/TheBoutrosLab/package-SeqKat/issues |
| License: | GPL-2 |GPL-3 [expanded from: GPL (≥ 2)] |
| URL: | https://github.com/TheBoutrosLab/package-SeqKat |
| NeedsCompilation: | yes |
| Materials: | README,NEWS |
| CRAN checks: | SeqKat results |
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