Introduction

katdetectr is an R package for the detection, characterization and visualization of localized hypermutated regions, often referred to as kataegis.

Please see the Application Note (under submission) for additional background, details and performance evaluations of katdetectr.

The general workflow of katdetectr can be summarized as follows:

1. Import of genomic variants; VCF, MAF or VRanges objects.
2. Detection of kataegis foci.
3. Visualization of segmentation and kataegis foci.

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.

Installation

Download katdetectr from BioConductor:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("katdetectr")