katdetectr
is an R package for the detection, characterization and visualization of localized hypermutated regions, often referred to as kataegis.
Please see the Technical Note for additional background, details and performance evaluations of katdetectr
.
The general workflow of katdetectr
can be summarized as follows:
Please see the vignette for an overview of the workflow in a step-by-step manner on publicly-available datasets which are included within this package.
Hazelaar, D. M., van Riet, J., Hoogstrate, Y., & van de Werken, H. J. (2023). Katdetectr: an R/bioconductor package utilizing unsupervised changepoint analysis for robust kataegis detection. GigaScience, 12, giad081.
Download katdetectr from BioConductor or Github:
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("katdetectr")
if (!requireNamespace("devtools", quietly = TRUE))
install.packages("devtools")
devtools::install_github("https://github.com/ErasmusMC-CCBC/katdetectr")