DOI: 10.18129/B9.bioc.katdetectr  

This is the development version of katdetectr; for the stable release version, see katdetectr.

Detection, Characterization and Visualization of Kataegis in Sequencing Data

Bioconductor version: Development (3.19)

Kataegis refers to the occurrence of regional hypermutation and is a phenomenon observed in a wide range of malignancies. Using changepoint detection katdetectr aims to identify putative kataegis foci from common data-formats housing genomic variants. Katdetectr has shown to be a robust package for the detection, characterization and visualization of kataegis.

Author: Daan Hazelaar [aut, cre] , Job van Riet [aut] , Harmen van de Werken [ths]

Maintainer: Daan Hazelaar <daanhazelaar at gmail.com>

Citation (from within R, enter citation("katdetectr")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



HTML R Script Overview_katdetectr
PDF   Reference Manual
Text   NEWS


biocViews Classification, SNP, Sequencing, Software, VariantAnnotation, WholeGenome
Version 1.5.1
In Bioconductor since BioC 3.16 (R-4.2) (1 year)
License GPL-3 + file LICENSE
Depends R (>= 4.2)
Imports BiocParallel(>= 1.26.2), changepoint (>= 2.2.3), changepoint.np (>= 1.0.3), checkmate (>= 2.0.0), dplyr (>= 1.0.8), GenomicRanges(>= 1.44.0), GenomeInfoDb(>= 1.28.4), IRanges(>= 2.26.0), maftools(>= 2.10.5), methods (>= 4.1.3), rlang (>= 1.0.2), S4Vectors(>= 0.30.2), tibble (>= 3.1.6), VariantAnnotation(>= 1.38.0), Biobase(>= 2.54.0), Rdpack (>= 2.3.1), ggplot2 (>= 3.3.5), tidyr (>= 1.2.0), BSgenome(>= 1.62.0), ggtext (>= 0.1.1), BSgenome.Hsapiens.UCSC.hg19(>= 1.4.3), BSgenome.Hsapiens.UCSC.hg38(>= 1.4.4), plyranges(>= 1.17.0)
Suggests scales (>= 1.2.0), knitr (>= 1.37), rmarkdown (>= 2.13), testthat (>= 3.0.0), BiocStyle(>= 2.26.0)
URL https://doi.org/doi:10.18129/B9.bioc.katdetectr
BugReports https://github.com/ErasmusMC-CCBC/katdetectr/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package katdetectr_1.5.1.tar.gz
Windows Binary katdetectr_1.5.1.zip
macOS Binary (x86_64) katdetectr_1.5.1.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/katdetectr
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/katdetectr
Bioc Package Browser https://code.bioconductor.org/browse/katdetectr/
Package Short Url https://bioconductor.org/packages/katdetectr/
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: