DOI: 10.18129/B9.bioc.SOMNiBUS  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see SOMNiBUS.

Smooth modeling of bisulfite sequencing

Bioconductor version: 3.16

This package aims to analyse count-based methylation data on predefined genomic regions, such as those obtained by targeted sequencing, and thus to identify differentially methylated regions (DMRs) that are associated with phenotypes or traits. The method is built a rich flexible model that allows for the effects, on the methylation levels, of multiple covariates to vary smoothly along genomic regions. At the same time, this method also allows for sequencing errors and can adjust for variability in cell type mixture.

Author: Kaiqiong Zhao [aut], Kathleen Klein [cre]

Maintainer: Kathleen Klein <kathleen.klein at>

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


To install this package, start R (version "4.2") 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:



HTML R Script Analyzing Targeted Bisulfite Sequencing data with SOMNiBUS
PDF   Reference Manual
Text   NEWS


biocViews DNAMethylation, DifferentialMethylation, Epigenetics, FunctionalPrediction, Regression, Sequencing, Software
Version 1.6.0
In Bioconductor since BioC 3.13 (R-4.1) (2 years)
License MIT + file LICENSE
Depends R (>= 4.1.0)
Imports graphics, Matrix, mgcv, stats, VGAM
Suggests BiocStyle, covr, devtools, dplyr, knitr, magick, rmarkdown, testthat
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 SOMNiBUS_1.6.0.tar.gz
Windows Binary
macOS Binary (x86_64) SOMNiBUS_1.6.0.tgz
macOS Binary (arm64) SOMNiBUS_1.6.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
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: