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: |
0.0.8 |
| Depends: |
R (≥ 2.15.1), foreach, doParallel |
| Imports: |
Rcpp (≥ 0.11.0) |
| LinkingTo: |
Rcpp |
| Suggests: |
testthat, doMC, rmarkdown, knitr |
| Published: |
2020-03-11 |
| Author: |
Fouad Yousif, Xihui Lin, Fan Fan, Christopher Lalansingh, John Macdonald |
| Maintainer: |
Paul C. Boutros <pboutros at mednet.ucla.edu> |
| License: |
GPL-2 |
| NeedsCompilation: |
yes |
| Materials: |
NEWS |
| CRAN checks: |
SeqKat results |
Documentation:
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