Registration Open for Bioc2024 July 24-26


Targeted sequencing panel design based on mutation hotspots

Bioconductor version: Release (3.19)

seq.hotSPOT provides a resource for designing effective sequencing panels to help improve mutation capture efficacy for ultradeep sequencing projects. Using SNV datasets, this package designs custom panels for any tissue of interest and identify the genomic regions likely to contain the most mutations. Establishing efficient targeted sequencing panels can allow researchers to study mutation burden in tissues at high depth without the economic burden of whole-exome or whole-genome sequencing. This tool was developed to make high-depth sequencing panels to study low-frequency clonal mutations in clinically normal and cancerous tissues.

Author: Sydney Grant [aut, cre], Lei Wei [aut], Gyorgy Paragh [aut]

Maintainer: Sydney Grant <sydney.grant at>

Citation (from within R, enter citation("seq.hotSPOT")):


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

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


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:

hotSPOT-vignette HTML R Script
Reference Manual PDF


biocViews DNASeq, Sequencing, Software, Technology, WholeGenome
Version 1.4.0
In Bioconductor since BioC 3.17 (R-4.3) (1 year)
License Artistic-2.0
Depends R (>= 3.5.0)
Imports R.utils, hash, stats, base, utils
System Requirements
Bug Reports
See More
Suggests BiocStyle, knitr, rmarkdown, testthat (>= 3.0.0)
Linking To
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package seq.hotSPOT_1.4.0.tar.gz
Windows Binary
macOS Binary (x86_64) seq.hotSPOT_1.4.0.tgz
macOS Binary (arm64) seq.hotSPOT_1.4.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats